Discovering regulatory binding-site modules using rule-based learning

RPN4(1) AND MCM1'(1) AND SCB(1) => SimExpr(YGR142W) : 5

EXPR: (0.085) RPN4 (P < 0.000) MCM1' (P < 0.000) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YCR061W	NO SYMBOL				HSF1
YGR142W	BTN2	regulation of pH, intracellular protein transport -> regulation of pH, intracellular protein transport		cytosol -> cytoplasm	HSF1, MSN4
YJL045W	NO SYMBOL				MBP1, ROX1
YHL024W	RIM4	sporulation, meiosis, premeiotic DNA synthesis, meiotic recombination -> sporulation, meiosis, premeiotic DNA synthesis, meiotic recombination	RNA binding -> RNA binding	cytoplasm -> cytoplasm	FKH2, PHD1
YGL096W	TOS8		transcription factor activity -> transcription factor activity		IXR1, SOK2, SWI4
Main:		premeiotic DNA synthesis (0.50)	RNA binding (0.50)	cytoplasm (1.00)	HSF1 (0.40)
Score:		0.00	0.00	1.00	0.100
P-value:		4.252E+00 (cell growth and/or maintenance)	7.667E-01 (nucleic acid binding)	4.409E+00 (cytoplasm)	5.771E-02 (HSF1)

ALPHA2(1) AND PAC(1) => SimExpr(YPL106C) OR SimExpr(other) : 17 3

EXPR: (0.158) ALPHA2 (P < 0.000) PAC (P < 0.093)

ORF	SYMBOL	P	F	C	TF
YIL096C	NO SYMBOL				GAT3, HAP2, MOT3, RTS2
YJR070C	NO SYMBOL				GAT3, YAP5
YHR027C	RPN1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	endopeptidase activity, receptor activity -> peptidase activity, receptor activity	proteasome regulatory particle (sensu Eukarya), endoplasmic reticulum, cytoplasm -> cytoplasm, nucleus
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, ribonucleoprotein complex, membrane
YKL172W	EBP2	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus	ABF1, FZF1, RFX1
\|YML108W\|	NO SYMBOL
YLR336C	SGD1	osmoregulation -> osmoregulation		nucleus -> nucleus
YFL007W	BLM3			membrane -> membrane
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, membrane	SWI5
YNR046W	NO SYMBOL				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YNL023C	FAP1		transcription factor activity -> nucleic acid binding
\|YOR284W\|	HUA2				RFX1, YAP6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> co-chaperone activity	cytoplasm -> cytoplasm	HSF1, MSN4
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.54)	nucleic acid binding (0.60)	nucleus (0.67)	ABF1 (0.31)
Score:		0.44	0.36	0.59	0.115
P-value:		3.866E-03 (ribosome biogenesis and assembly)	4.710E-01 (RNA binding)	8.984E-03 (nucleolus)	7.648E-01 (GAT3)

ALPHA2(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YPL106C) OR SimExpr(other) : 8 1

EXPR: (0.146) ALPHA2 (P < 0.000) ALPHA1' (P < 0.000) PAC (P < 0.117)

ORF	SYMBOL	P	F	C	TF
YJR070C	NO SYMBOL				GAT3, YAP5
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> co-chaperone activity	cytoplasm -> cytoplasm	HSF1, MSN4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.75)	nucleic acid binding (0.50)	nucleus (0.67)	ABF1 (0.14)
Score:		0.61	0.27	0.53	0.000
P-value:		1.416E-03 (rRNA processing)	1.688E-01 (transferase activity\, transferring glycosyl groups)	4.202E-02 (nucleolus)	9.905E-01 (MSN4)

SFF'(1) AND PAC(1) => SimExpr(YGR280C) OR SimExpr(other) : 71 31

EXPR: (0.176) SFF' (P < 0.000) PAC (P < 0.689)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
\|YFL011W\|	HXT10	hexose transport -> transport	glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity -> transporter activity	plasma membrane -> membrane	GTS1, MBP1, RTG3
YPR031W	NTO1				MSN2, RCS1
\|YJR055W\|	HIT1	aerobic respiration -> energy pathways			STP2
YHR027C	RPN1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	endopeptidase activity, receptor activity -> peptidase activity, signal transducer activity	proteasome regulatory particle (sensu Eukarya), endoplasmic reticulum, cytoplasm -> intracellular
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding	nucleolus, proteasome complex (sensu Eukarya) -> intracellular	HAP4, MATa1
YNL132W	KRE33
YHR088W	RPF1	processing of 27S pre-rRNA, ribosomal large subunit assembly and maintenance -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	rRNA primary transcript binding -> nucleic acid binding	nucleolus -> intracellular	FKH1
YOL041C	NOP12	rRNA metabolism -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular	GTS1, MET31
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> intracellular, membrane
\|YHR083W\|	NO SYMBOL				DIG1, STE12
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YML043C	RRN11	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> intracellular	MAL13
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YDR101C	ARX1	ribosomal large subunit biogenesis -> cell organization and biogenesis		nucleoplasm, cytoplasm -> intracellular	IXR1, RFX1
\|YLL027W\|	ISA1	iron ion transport -> transport		mitochondrial matrix -> intracellular	HAP2, HAP3, HAP5, HSF1, YAP3
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	HIR2, USV1
\|YPL149W\|	APG5	protein-vacuolar targeting, autophagy -> cell organization and biogenesis, autophagy, protein metabolism, transport		cytosol -> intracellular
\|YKL142W\|	MRP8	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	mitochondrial ribosome -> intracellular	ACE2, CIN5, MBP1, PHO4, REB1, SKN7, STB1
\|YIL122W\|	POG1	re-entry into mitotic cell cycle after pheromone arrest -> cell proliferation, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> intracellular	ASH1, CIN5, NRG1, RLM1, SMP1, YAP6
YGR145W	ENP2
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> intracellular	RFX1, STB1
\|YBR044C\|	TCM62	protein complex assembly -> protein metabolism	chaperone activity -> chaperone activity	mitochondrial inner membrane -> intracellular, membrane	GRF10(Pho2), MCM1
\|YBL066C\|	SEF1
YML005W	NO SYMBOL				USV1
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	USV1
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> intracellular	CUP9, MET4, RAP1
YNL308C	KRI1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> intracellular
YNR024W	NO SYMBOL
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> nucleic acid binding	ribosome, cytoplasm -> intracellular	PHD1
\|YNL277W\|	MET2	methionine biosynthesis, homoserine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine O-acetyltransferase activity -> transferase activity\, transferring acyl groups	cytoplasm -> intracellular	CBF1, MET31, MET4, STE12
\|YPR149W\|	NCE102	protein secretion -> protein secretion		integral to membrane, endoplasmic reticulum, cytoplasm -> membrane, intracellular	CIN5, FKH2, GRF10(Pho2), HSF1, NDD1, PUT3, RAP1, SKN7, SWI4, YAP6
\|YHR146W\|	CRP1		DNA binding -> nucleic acid binding	nucleus -> intracellular	IXR1
YLR073C	NO SYMBOL
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YNL299W	TRF5	sister chromatid cohesion -> cell proliferation	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> intracellular
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> intracellular, membrane	SWI5
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> intracellular	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> intracellular
YNL112W	DBP2		RNA helicase activity -> nucleic acid binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
\|YCR090C\|	NO SYMBOL
\|YGR191W\|	HIP1	manganese ion transport, histidine transport -> transport, organic acid transport	histidine transporter activity -> transporter activity	plasma membrane -> membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
YOR359W	VTS1	protein-vacuolar targeting -> cell organization and biogenesis, protein metabolism, transport	intracellular transporter activity -> transporter activity	cytosol -> intracellular	RAP1
\|YGR178C\|	PBP1	mRNA polyadenylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		cytoplasm, nucleus -> intracellular	CIN5, DOT6, MSS11
YCR016W	NO SYMBOL
YNL163C	RIA1	ribosome biogenesis -> cell organization and biogenesis	translation elongation factor activity -> nucleic acid binding	cytoplasm -> intracellular	FHL1, RAP1, YAP5
\|YBR292C\|	NO SYMBOL				STE12, ZMS1
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YCR072C	NO SYMBOL				YFL044C
YGL078C	DBP3	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YKL056C	NO SYMBOL
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, transport	protein carrier activity -> transporter activity	cytoplasm, nuclear pore -> intracellular, membrane	MSN2
\|YIR026C\|	YVH1	meiosis, sporulation (sensu Saccharomyces) -> cell proliferation, sporulation	protein tyrosine phosphatase activity -> hydrolase activity\, acting on ester bonds		DOT6, SUM1
YML108W	NO SYMBOL
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
YLR221C	RSA3
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> intracellular, membrane	FKH1, FKH2
YKL078W	DHR2	ribosome biogenesis -> cell organization and biogenesis	RNA helicase activity -> nucleic acid binding	nucleolus -> intracellular	ABF1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
YDR384C	ATO3	transport, nitrogen utilization -> transport, nitrogen metabolism	transporter activity -> transporter activity	membrane -> membrane	ABF1, FHL1, INO4
YNL023C	FAP1		transcription factor activity -> nucleic acid binding
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> intracellular	ABF1, SWI6
\|YDR017C\|	KCS1	vacuole organization and biogenesis, response to stress -> cell organization and biogenesis, response to stress	inositol/phosphatidylinositol kinase activity -> transferase activity\, transferring phosphorus-containing groups
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	ABF1, HIR1, RCS1
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> membrane	CIN5, PDR1, YAP6
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> intracellular	ABF1, AZF1
\|YIR035C\|	NO SYMBOL				YAP6
\|YJL166W\|	QCR8	aerobic respiration, oxidative phosphorylation\, ubiquinone to cytochrome c -> energy pathways, electron transport, phosphorus metabolism	ubiquinol-cytochrome c reductase activity -> oxidoreductase activity\, acting on diphenols and related substances as donors, transporter activity	respiratory chain complex III (sensu Eukarya) -> intracellular, membrane
YIL026C	IRR1	mitotic sister chromatid cohesion, colony morphology, germination (sensu Saccharomyces), cytogamy -> cell organization and biogenesis, sporulation, plasma membrane fusion, sporulation (sensu Fungi), cell proliferation, conjugation, sexual reproduction	protein binding -> protein binding	nuclear cohesin complex -> intracellular	ABF1, MAL33, MBP1, SWI6
YOR021C	NO SYMBOL				ARG80, GCR2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> intracellular, membrane	RAP1
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> membrane	CBF1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	MATa1, RCS1, RTG3, SWI5
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell organization and biogenesis, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> intracellular	ZMS1
YKL014C	NO SYMBOL				ABF1
YML123C	PHO84	phosphate transport -> transport	inorganic phosphate transporter activity -> transporter activity	integral to plasma membrane -> membrane	HIR2
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1
YGL189C	RPS26A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	cytosolic small ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
YPL143W	RPL33A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	cytosolic large ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, MET4, NDD1, PDR1, RAP1, RME1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YDR361C	BCP1				ABF1, ARO80, GLN3, HAP5, IXR1, YAP1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
\|YKL120W\|	OAC1	oxaloacetate transport, sulfate transport -> transport	oxaloacetate carrier activity, sulfate porter activity -> transporter activity	mitochondrial inner membrane -> intracellular, membrane	LEU3, MTH1
YGL092W	NUP145	tRNA splicing, mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, protein-nucleus import, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear pore organization and biogenesis -> intracellular transport, intracellular protein transport, cell organization and biogenesis, protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein transport	structural molecule activity -> structural molecule activity	nuclear pore -> intracellular, membrane	FKH1
\|YOL141W\|	PPM2		C-terminal protein carboxyl methyltransferase activity -> transferase activity\, transferring one-carbon groups		ARG81, SRD1
\|YPL165C\|	SET6				CIN5
YJL010C	NO SYMBOL
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> chaperone activity	cytoplasm -> intracellular	HSF1, MSN4
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		cell organization and biogenesis (0.42)	nucleic acid binding (0.41)	intracellular (0.89)	ABF1 (0.19)
Score:		0.34	0.20	0.83	0.106
P-value:		3.308E-08 (ribosome biogenesis)	6.981E-04 (RNA helicase activity)	1.233E-12 (nucleolus)	6.270E-01 (ABF1)

SWI5(1) AND PAC(1) => SimExpr(YGR280C) OR SimExpr(other) : 25 10

EXPR: (0.174) SWI5 (P < 0.000) PAC (P < 0.602)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
\|YFL011W\|	HXT10	hexose transport -> transport	glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity -> hexose transporter activity	plasma membrane -> plasma membrane	GTS1, MBP1, RTG3
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YHR089C	GAR1	rRNA modification, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	RNA binding -> RNA binding	nucleolus, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	CBF1, FZF1
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> cytoplasm	RFX1, STB1
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
YNR024W	NO SYMBOL
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> nucleus	STB1
YNL299W	TRF5	sister chromatid cohesion -> cell proliferation	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YPL068C	NO SYMBOL				CBF1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell organization and biogenesis	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
\|YBR292C\|	NO SYMBOL				STE12, ZMS1
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, transport	protein carrier activity -> protein carrier activity	cytoplasm, nuclear pore -> cytoplasm, nucleus, integral to membrane, endomembrane system	MSN2
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YGL079W	NO SYMBOL				PHO4, STP1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YBR069C	TAT1	amino acid transport -> transport	amino acid transporter activity -> carboxylic acid transporter activity	plasma membrane -> plasma membrane	CIN5, DAL81, PHD1, SWI4
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
\|YKL145W\|	RPT1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	ATPase activity, endopeptidase activity -> purine nucleotide binding, peptidase activity, hydrolase activity\, acting on acid anhydrides	proteasome regulatory particle (sensu Eukarya) -> cytoplasm, nucleus	REB1
YPL143W	RPL33A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MET4, NDD1, PDR1, RAP1, RME1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
\|YKL120W\|	OAC1	oxaloacetate transport, sulfate transport -> transport	oxaloacetate carrier activity, sulfate porter activity -> electrochemical potential-driven transporter activity, anion transporter activity, organic cation transporter activity, carboxylic acid transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	LEU3, MTH1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.42)	RNA binding (0.30)	nucleus (0.65)	RAP1 (0.14)
Score:		0.34	0.09	0.54	0.093
P-value:		5.653E-04 (ribosome biogenesis and assembly)	2.381E-01 (snoRNA binding)	6.852E-05 (nucleolus)	3.677E-01 (MSN4)

SFF'(1) AND PAC(1) AND SCB(1) => SimExpr(YGR280C) OR SimExpr(other) : 23 8

EXPR: (0.141) SFF' (P < 0.000) PAC (P < 0.103) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> intracellular	HAP4, MATa1
YHR088W	RPF1	processing of 27S pre-rRNA, ribosomal large subunit assembly and maintenance -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	rRNA primary transcript binding -> nucleic acid binding	nucleolus -> intracellular	FKH1
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> pore complex, intracellular, endomembrane system
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YML043C	RRN11	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> intracellular	MAL13
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> intracellular	RFX1, STB1
\|YBR044C\|	TCM62	protein complex assembly -> protein metabolism	chaperone activity -> chaperone activity	mitochondrial inner membrane -> intracellular, inner membrane	GRF10(Pho2), MCM1
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> nucleic acid binding	ribosome, cytoplasm -> intracellular	PHD1
YLR073C	NO SYMBOL
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> intracellular	RCS1
YNL112W	DBP2		RNA helicase activity -> nucleic acid binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
\|YGR191W\|	HIP1	manganese ion transport, histidine transport -> transport, organic acid transport	histidine transporter activity -> transporter activity	plasma membrane -> plasma membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
YKL056C	NO SYMBOL
\|YIR026C\|	YVH1	meiosis, sporulation (sensu Saccharomyces) -> cell proliferation, sporulation	protein tyrosine phosphatase activity -> hydrolase activity\, acting on ester bonds		DOT6, SUM1
YML108W	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> intracellular, inner membrane	FKH1, FKH2
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> intracellular	ABF1, SWI6
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell organization and biogenesis, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> intracellular	ZMS1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
\|YKL120W\|	OAC1	oxaloacetate transport, sulfate transport -> transport	oxaloacetate carrier activity, sulfate porter activity -> transporter activity	mitochondrial inner membrane -> intracellular, inner membrane	LEU3, MTH1
\|YOL141W\|	PPM2		C-terminal protein carboxyl methyltransferase activity -> transferase activity\, transferring one-carbon groups		ARG81, SRD1
\|YPL165C\|	SET6				CIN5
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> chaperone activity	cytoplasm -> intracellular	HSF1, MSN4
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.46)	nucleic acid binding (0.46)	intracellular (0.88)	ABF1 (0.18)
Score:		0.33	0.22	0.76	0.052
P-value:		2.716E-04 (transcription from Pol I promoter)	4.641E-03 (RNA binding)	2.219E-05 (nucleolus)	1.000E+00

LYS14(1) AND PAC(1) => SimExpr(YGR280C) OR SimExpr(other) : 13 6

EXPR: (0.145) LYS14 (P < 0.000) PAC (P < 0.209)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YML093W	UTP14	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YJR070C	NO SYMBOL				GAT3, YAP5
YBR034C	HMT1	peptidyl-arginine modification, mRNA-nucleus export -> protein metabolism, transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein-arginine N-methyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YHL017W\|	NO SYMBOL				SIP4
\|YGR191W\|	HIP1	manganese ion transport, histidine transport -> transport, organic acid transport	histidine transporter activity -> carboxylic acid transporter activity	plasma membrane -> plasma membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
\|YGR178C\|	PBP1	mRNA polyadenylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		cytoplasm, nucleus -> cytoplasm, nucleus	CIN5, DOT6, MSS11
YNL163C	RIA1	ribosome biogenesis -> cell organization and biogenesis	translation elongation factor activity -> translation factor activity\, nucleic acid binding	cytoplasm -> cytoplasm	FHL1, RAP1, YAP5
YNL141W	AAH1	adenine catabolism -> aromatic compound metabolism, catabolism, heterocycle metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	adenine deaminase activity -> hydrolase activity\, acting on carbon-nitrogen (but not peptide) bonds		YFL044C
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YNL110C	NOP15	ribosomal large subunit biogenesis -> cell organization and biogenesis		nucleus, nucleolus -> nucleus
YDR361C	BCP1				ABF1, ARO80, GLN3, HAP5, IXR1, YAP1
YGL099W	LSG1	conjugation with cellular fusion, sporulation (sensu Saccharomyces), ribosome nucleus export -> conjugation, sporulation, cell organization and biogenesis, protein metabolism, transport, sexual reproduction	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm -> cytoplasm	PHO4
\|YOL141W\|	PPM2		C-terminal protein carboxyl methyltransferase activity -> transferase activity\, transferring one-carbon groups		ARG81, SRD1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.55)	RNA binding (0.20)	nucleus (0.70)	RAP1 CIN5 YAP1 GLN3 MBP1 SIP4 YAP5 SRD1 (0.13)
Score:		0.55	0.04	0.58	0.067
P-value:		1.266E-02 (ribosome biogenesis)	2.403E-01 (methyltransferase activity)	5.054E-03 (nucleolus)	8.118E-01 (GLN3)

SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YGR280C) OR SimExpr(other) : 9 3

EXPR: (0.119) SWI5 (P < 0.000) PAC (P < 0.075) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> cytoplasm	RFX1, STB1
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> nucleus	STB1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
\|YKL120W\|	OAC1	oxaloacetate transport, sulfate transport -> transport	oxaloacetate carrier activity, sulfate porter activity -> electrochemical potential-driven transporter activity, anion transporter activity, organic cation transporter activity, carboxylic acid transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	LEU3, MTH1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.60)	RNA binding (0.38)	nucleus (0.56)	ABF1 INO4 STB1 (0.22)
Score:		0.44	0.11	0.42	0.083
P-value:		2.257E-03 (ribosome biogenesis and assembly)	3.072E-01 (RNA binding)	8.745E-03 (nucleolus)	1.682E-01 (STB1)

SFF'(1) AND PAC(1) AND MCM1'(1) AND SCB(1) => SimExpr(YGR280C) OR SimExpr(other) : 5 1

EXPR: (0.105) SFF' (P < 0.000) PAC (P < 0.115) MCM1' (P < 0.000) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> intracellular	RFX1, STB1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> intracellular	ABF1, SWI6
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> intracellular
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell organization and biogenesis, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> intracellular	ZMS1
Main:		cell organization and biogenesis (0.67)	RNA binding (0.40)	intracellular (0.83)	ABF1 (0.20)
Score:		0.60	0.20	0.67	0.000
P-value:		6.101E-04 (35S primary transcript processing)	4.216E-01 (hydrolase activity\, acting on ester bonds)	1.464E-01 (nucleolus)	4.452E-01 (ZMS1)

mRRPE(1) AND PAC(1) => SimExpr(YGR280C) OR SimExpr(other) : 79 6

EXPR: (0.110) mRRPE (P < 0.000) PAC (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YLR197W	SIK1	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex, nucleus, nucleolus -> nucleus, ribonucleoprotein complex	DAL81, HAL9
YBR267W	NO SYMBOL
YPL043W	NOP4	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YPL266W	DIM1	rRNA modification, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA (adenine-N6\,N6-)-dimethyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleolus -> nucleus	ARG81, STP2
YGR272C	NO SYMBOL				REB1, STP2
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YNL132W	KRE33
YGR159C	NSR1	ribosomal small subunit assembly and maintenance, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	single-stranded DNA binding, RNA binding -> DNA binding, RNA binding	nucleolus, nucleus -> nucleus
YML093W	UTP14	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YGL169W	SUA5	cell growth and/or maintenance -> cell growth and/or maintenance			ABF1
YJL109C	UTP10	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YDR101C	ARX1	ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleoplasm, cytoplasm -> nucleus, cytoplasm	IXR1, RFX1
YHR089C	GAR1	rRNA modification, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	RNA binding -> RNA binding	nucleolus, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	CBF1, FZF1
YJL033W	HCA4	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YDR161W	NO SYMBOL
YDR496C	PUF6				RFX1
YNL209W	SSB2	protein biosynthesis -> biosynthesis, protein metabolism	chaperone activity, ATPase activity -> chaperone activity, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	polysome, cytoplasm -> cytoplasm, ribonucleoprotein complex	ABF1, RFX1
\|YIL122W\|	POG1	re-entry into mitotic cell cycle after pheromone arrest -> cell growth and/or maintenance, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ASH1, CIN5, NRG1, RLM1, SMP1, YAP6
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YMR131C	RRB1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> nucleus	FZF1, MATa1, RGT1
YDR365C	NO SYMBOL				ABF1, MSS11, YJL206C
YGR145W	ENP2
YNL175C	NOP13		RNA binding -> RNA binding	nucleolus, nucleoplasm -> nucleus	INO2, INO4
YJR070C	NO SYMBOL				GAT3, YAP5
YJL050W	MTR4	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	USV1
YNL308C	KRI1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> nucleus
YGR162W	TIF4631	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	HSF1
YNR024W	NO SYMBOL
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation factor activity\, nucleic acid binding, RNA binding	ribosome, cytoplasm -> cytoplasm, ribonucleoprotein complex	PHD1
YMR239C	RNT1	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, RNA binding	nucleolus -> nucleus
YHR169W	DBP8	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YGL171W	ROK1	35S primary transcript processing, mRNA splicing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity, ATPase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	RGT1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell growth and/or maintenance	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell growth and/or maintenance		nucleus -> nucleus
YMR049C	ERB1	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YCR090C\|	NO SYMBOL
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleus, nucleolus -> nucleus	LEU3, PUT3, REB1
YOR359W	VTS1	protein-vacuolar targeting -> protein metabolism, cell growth and/or maintenance	intracellular transporter activity -> transporter activity	cytosol -> cytoplasm	RAP1
YCR016W	NO SYMBOL
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YCR072C	NO SYMBOL				YFL044C
YGL078C	DBP3	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YKL056C	NO SYMBOL
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, cell growth and/or maintenance	protein carrier activity -> protein binding	cytoplasm, nuclear pore -> cytoplasm, nucleus, integral to membrane, endomembrane system	MSN2
YKL172W	EBP2	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus	ABF1, FZF1, RFX1
YLR002C	NOC3	DNA replication initiation, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	chromatin binding, protein binding -> DNA binding, protein binding	nucleus, nucleolus -> nucleus	HIR1, IXR1, RCS1
YAL059W	ECM1	cell wall organization and biogenesis -> cell growth and/or maintenance			MOT3
YMR014W	BUD22	bud site selection -> cell growth and/or maintenance		nucleus -> nucleus	CUP9, HAL9, HIR2, LEU3, NDD1, RLM1, ROX1, SMP1, YAP6
YBR247C	ENP1	processing of 20S pre-rRNA, rRNA processing, cell growth and/or maintenance -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	nucleolus, nucleus -> nucleus
YBR104W	YMC2	transport -> cell growth and/or maintenance	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YMR310C	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YJL148W	RPA34	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex, nucleus, nucleolus -> nucleus	AZF1, CHA4, CUP9, DAL81, DIG1, FZF1, GCR1, GCR2, GLN3, HAL9, HAP2, HAP3, HMS1, LEU3, MAC1, MBP1, MET31, MOT3, NDD1, PDR1, PHD1, REB1, RLM1, RME1, ROX1, RPH1, RTS2, SKN7, SWI5, YAP6, ZAP1
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
\|YDR184C\|	ATC1	response to stress, polar budding -> response to stress, asexual reproduction		nucleus -> nucleus	ARO80, GLN3, SIP4, SKO1
YPR144C	NOC4	ribosome biogenesis -> cell growth and/or maintenance		nucleus -> nucleus	HIR1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> cell growth and/or maintenance	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> nucleus, nucleoplasm	ABF1, AZF1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YNL110C	NOP15	ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleus, nucleolus -> nucleus
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
YKL014C	NO SYMBOL				ABF1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YHR196W	UTP9	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
YGL099W	LSG1	conjugation with cellular fusion, sporulation (sensu Saccharomyces), ribosome nucleus export -> conjugation, protein metabolism, cell growth and/or maintenance, sexual reproduction	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm -> cytoplasm	PHO4
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell growth and/or maintenance (0.77)	RNA binding (0.55)	nucleus (0.82)	ABF1 (0.21)
Score:		0.72	0.33	0.74	0.103
P-value:		4.632E-32 (ribosome biogenesis)	1.304E-08 (snoRNA binding)	1.478E-34 (nucleolus)	8.229E-01 (ABF1)

REB1(1) AND PAC(1) => SimExpr(YGR280C) OR SimExpr(other) : 6 1

EXPR: (0.133) REB1 (P < 0.004) PAC (P < 0.211)

ORF	SYMBOL	P	F	C	TF
YPL266W	DIM1	rRNA modification, 35S primary transcript processing -> RNA modification, ribosome biogenesis, rRNA metabolism, RNA processing, transcription from Pol I promoter	rRNA (adenine-N6\,N6-)-dimethyltransferase activity -> rRNA (adenine-N6\,N6-)-dimethyltransferase activity	nucleolus -> nucleolus	ARG81, STP2
YML043C	RRN11	transcription from Pol I promoter -> transcription from Pol I promoter	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> nucleolus, transcription factor complex	MAL13
\|YKL142W\|	MRP8	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	mitochondrial ribosome -> mitochondrial matrix, organellar ribosome	ACE2, CIN5, MBP1, PHO4, REB1, SKN7, STB1
YNL308C	KRI1	ribosome biogenesis -> ribosome biogenesis		nucleolus -> nucleolus
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> chromosome organization and biogenesis (sensu Eukarya), ribosome biogenesis		nucleus, nucleolus -> nucleus, nucleolus	LEU3, PUT3, REB1
YOR021C	NO SYMBOL				ARG80, GCR2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> ribosome biogenesis, snRNA processing, RNA processing, transcription from Pol I promoter	RNA binding -> RNA binding	nucleolus -> nucleolus
Main:		ribosome biogenesis (0.67)	structural constituent of ribosome (0.25)	nucleolus (0.83)	REB1 (0.40)
Score:		0.53	0.00	0.67	0.100
P-value:		1.192E-03 (ribosome biogenesis)	2.000E+00	9.924E-06 (nucleolus)	3.338E-01 (REB1)

mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YGR280C) OR SimExpr(other) : 21 1

EXPR: (0.098) mRRPE (P < 0.000) PAC (P < 0.000) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YLR197W	SIK1	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex, nucleus, nucleolus -> nucleus, ribonucleoprotein complex	DAL81, HAL9
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YGR159C	NSR1	ribosomal small subunit assembly and maintenance, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	single-stranded DNA binding, RNA binding -> DNA binding, RNA binding	nucleolus, nucleus -> nucleus
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YMR131C	RRB1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> nucleus	FZF1, MATa1, RGT1
YJR070C	NO SYMBOL				GAT3, YAP5
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation factor activity\, nucleic acid binding, RNA binding	ribosome, cytoplasm -> cytoplasm, ribonucleoprotein complex	PHD1
YMR239C	RNT1	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, RNA binding	nucleolus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YKL056C	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
\|YDR184C\|	ATC1	response to stress, polar budding -> response to stress, asexual reproduction		nucleus -> nucleus	ARO80, GLN3, SIP4, SKO1
YPR144C	NOC4	ribosome biogenesis -> cell organization and biogenesis		nucleus -> nucleus	HIR1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.59)	RNA binding (0.58)	nucleus (0.76)	ABF1 (0.21)
Score:		0.49	0.33	0.70	0.066
P-value:		4.708E-08 (ribosome biogenesis)	6.869E-03 (RNA binding)	2.517E-08 (nucleolus)	5.795E-01 (SKO1)

REB1(1) AND SWI5(1) AND SCB(1) => SimExpr(YGR280C) OR SimExpr(other) : 6 2

EXPR: (0.197) SWI5 (P < 0.023) REB1 (P < 0.066) SCB (P < 0.082)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YPL237W	SUI3	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation initiation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YMR186W\|	HSC82	protein folding, response to stress -> protein metabolism, response to stress	cation-transporting ATPase activity, chaperone activity -> cation-transporting ATPase activity, chaperone activity		BAS1, HAP2, HSF1, INO4, REB1, ROX1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
\|YMR002W\|	NO SYMBOL				NDD1, REB1, SWI6
Main:		biosynthesis (0.57)	RNA binding (0.29)	cytoplasm (0.50)	REB1 (1.00)
Score:		0.48	0.05	0.27	1.000
P-value:		6.902E-01 (protein biosynthesis)	4.182E-01 (binding)	1.018E+00 (ribosome)	5.891E-07 (REB1)

REB1(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YGR280C) : 5

EXPR: (0.067) ALPHA1' (P < 0.000) REB1 (P < 0.000) PAC (P < 0.006)

ORF	SYMBOL	P	F	C	TF
YML043C	RRN11	transcription from Pol I promoter -> transcription from Pol I promoter	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> nucleolus, transcription factor complex	MAL13
YNL308C	KRI1	ribosome biogenesis -> ribosome biogenesis		nucleolus -> nucleolus
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> chromosome organization and biogenesis (sensu Eukarya), ribosome biogenesis		nucleus, nucleolus -> nucleus, nucleolus	LEU3, PUT3, REB1
YOR021C	NO SYMBOL				ARG80, GCR2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> ribosome biogenesis, snRNA processing, RNA processing, transcription from Pol I promoter	RNA binding -> RNA binding	nucleolus -> nucleolus
Main:		ribosome biogenesis (0.75)	RNA polymerase I transcription factor activity (0.50)	nucleolus (1.00)	GCR2 (0.33)
Score:		0.67	0.00	1.00	0.000
P-value:		7.362E-03 (ribosome biogenesis)	2.000E+00	6.546E-05 (nucleolus)	2.166E-01 (PUT3)

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGR280C) : 9

EXPR: (0.068) LYS14 (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YML093W	UTP14	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJR070C	NO SYMBOL				GAT3, YAP5
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YNL110C	NOP15	ribosomal large subunit biogenesis -> cell organization and biogenesis		nucleus, nucleolus -> nucleus
YGL099W	LSG1	conjugation with cellular fusion, sporulation (sensu Saccharomyces), ribosome nucleus export -> conjugation, sporulation, cell organization and biogenesis, protein metabolism, transport, sexual reproduction	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm -> cytoplasm	PHO4
Main:		cell organization and biogenesis (0.67)	RNA binding (0.40)	nucleus (0.83)	GCR2 (0.17)
Score:		0.60	0.10	0.73	0.000
P-value:		4.043E-03 (ribosome biogenesis)	8.137E-01 (RNA binding)	6.529E-05 (nucleolus)	1.000E+00

SFF'(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YGR280C) : 13

EXPR: (0.094) SFF' (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.007) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YHR052W	CIC1	protein catabolism -> macromolecule catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YJL109C	UTP10	processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJL138C	TIF2	translational initiation, regulation of translational initiation -> macromolecule biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation factor activity\, nucleic acid binding, RNA binding	ribosome, cytoplasm -> cytoplasm, ribonucleoprotein complex	PHD1
YNL292W	PUS4	tRNA modification -> RNA metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cytoplasm organization and biogenesis, RNA metabolism, transcription		nucleolus -> nucleus
YKL056C	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription\, DNA-dependent		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR078W	BUD21	processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cytoplasm organization and biogenesis, RNA metabolism, transcription	RNA binding -> RNA binding	nucleolus -> nucleus
YLR249W	YEF3	translational elongation -> macromolecule biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		RNA metabolism (0.60)	RNA binding (0.56)	nucleus (0.64)	ABF1 (0.38)
Score:		0.40	0.31	0.65	0.107
P-value:		4.640E-04 (rRNA processing)	1.671E-02 (RNA binding)	4.657E-05 (nucleolus)	6.757E-01 (ABF1)

RAP1(1) AND ALPHA1'(1) => SimExpr(YOL120C) OR SimExpr(other) : 30 11

EXPR: (0.168) ALPHA1' (P < 0.000) RAP1 (P < 0.429)

ORF	SYMBOL	P	F	C	TF
YNL201C	PSY2
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> purine nucleotide binding, primary active transporter activity, cation transporter activity, hydrolase activity\, acting on acid anhydrides	membrane -> membrane	GAL4, SMP1
YJR123W	RPS5	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GRF10(Pho2), HSF1, MSN4, YAP1
\|YBL022C\|	PIM1	proteolysis and peptidolysis, response to heat -> catabolism, response to abiotic stimulus, protein metabolism	ATP-dependent peptidase activity -> peptidase activity	mitochondrial matrix -> cytoplasm	RAP1
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> transferase activity\, transferring alkyl or aryl (other than methyl) groups
YPL090C	RPS6A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, INO4, RAP1, YAP5
YOL121C	RPS19A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	AZF1, FHL1, GCR1, GCR2, HAL9, MET31, MOT3, PDR1, RAP1, ROX1, RPH1, SMP1, YAP6, ZAP1
YLR061W	RPL22A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	BAS1, FHL1, HIR1, PDR1, RAP1, RCS1, RME1, ZAP1
YMR231W	PEP5	nonselective vesicle docking, homotypic vacuole fusion (non-autophagic), Golgi to endosome transport, late endosome to vacuole transport -> cell organization and biogenesis, transport, vesicle-mediated transport		vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole	ARG81, DOT6, HAL9, HAP2, MCM1, YAP1
YLR003C	NO SYMBOL				ABF1
\|YNL101W\|	AVT4	neutral amino acid transport -> transport	neutral amino acid transporter activity -> carboxylic acid transporter activity	vacuole -> cytoplasm	HAP3, INO4, IXR1, PHD1, RAP1
YHL033C	RPL8A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDL130W	RPP1B	protein biosynthesis, translational elongation -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAL4, RAP1, RFX1
YDR418W	RPL12B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, SMP1
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOL120C	RPL18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MAL13, RAP1, YAP5
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
\|YHL038C\|	CBP2	RNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pre-mRNA splicing factor activity -> RNA binding	mitochondrion -> cytoplasm	RAP1
YOR096W	RPS7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, FKH2, RAP1
\|YJR138W\|	IML1				ABF1, DOT6, GCR2, MET31, REB1
\|YGR254W\|	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> carbon-oxygen lyase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
YNL288W	CAF40	regulation of transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		CCR4-NOT complex -> nucleus	RAP1
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
\|YKL180W\|	RPL17A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YOR213C	SAS5	chromatin silencing at telomere -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	acetyltransferase activity -> transferase activity\, transferring acyl groups	nuclear chromosome\, telomeric region, nuclear chromatin -> chromosome, nuclear chromosome	GRF10(Pho2), SUM1
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YBR181C	RPS6B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, MAL13, RAP1, RGM1
\|YGL196W\|	NO SYMBOL
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
\|YKL072W\|	STB6				ARG81, ARO80, BAS1, CIN5, GCN4, GLN3, HAP3, MCM1, PHD1, REB1, RLM1, YJL206C, ZAP1
YBR118W	TEF2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
\|YKL033W\|	NO SYMBOL				RPH1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YGL076C	RPL7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YNL096C	RPS7B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, SFP1
\|YMR013C\|	SEC59	protein-ER targeting, protein amino acid glycosylation -> cell organization and biogenesis, biosynthesis, protein modification, protein metabolism, transport	dolichol kinase activity -> transferase activity\, transferring phosphorus-containing groups	membrane -> membrane	FHL1, NDD1, RAP1, RLM1, RME1
Main:		biosynthesis (0.71)	structural constituent of ribosome (0.59)	cytoplasm (0.81)	RAP1 (0.62)
Score:		0.59	0.36	0.75	0.523
P-value:		5.747E-10 (protein biosynthesis)	1.212E-12 (structural constituent of ribosome)	5.334E-15 (cytosolic ribosome (sensu Eukarya))	9.623E-23 (FHL1)

RAP1(1) AND ATRepeat(1) => SimExpr(YOL120C) OR SimExpr(other) : 6 1

EXPR: (0.131) ATRepeat (P < 0.000) RAP1 (P < 0.218)

ORF	SYMBOL	P	F	C	TF
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> spermine synthase activity
\|YPL162C\|	NO SYMBOL
YOL120C	RPL18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, MAL13, RAP1, YAP5
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> phosphoglycerate mutase activity	cytosol -> cytosol	GCR1, GCR2, HSF1, RAP1
YPL180W	BIT89	glycerol metabolism -> alcohol metabolism, glycerol ether metabolism, lipid metabolism			REB1, RGT1, SIG1
YGL076C	RPL7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome
Main:		biosynthesis (0.83)	structural constituent of ribosome (0.60)	cytosol (1.00)	RAP1 FHL1 (0.50)
Score:		0.73	0.30	1.00	0.333
P-value:		5.195E-02 (biosynthesis)	3.065E-02 (structural constituent of ribosome)	2.975E-02 (cytosolic ribosome (sensu Eukarya))	2.912E-01 (FHL1)

RAP1(1) AND MCM1'(1) => SimExpr(YOL120C) OR SimExpr(other) : 17 6

EXPR: (0.155) MCM1' (P < 0.000) RAP1 (P < 0.271)

ORF	SYMBOL	P	F	C	TF
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> transferase activity\, transferring alkyl or aryl (other than methyl) groups
\|YBL093C\|	ROX3	transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase II transcription mediator activity -> general RNA polymerase II transcription factor activity	mediator complex, nucleus -> nucleus	FHL1, RAP1
YPL090C	RPS6A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, INO4, RAP1, YAP5
YLR061W	RPL22A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	BAS1, FHL1, HIR1, PDR1, RAP1, RCS1, RME1, ZAP1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDL130W	RPP1B	protein biosynthesis, translational elongation -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAL4, RAP1, RFX1
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOL120C	RPL18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MAL13, RAP1, YAP5
\|YHL038C\|	CBP2	RNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pre-mRNA splicing factor activity -> RNA binding	mitochondrion -> cytoplasm	RAP1
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> small GTPase regulatory/interacting protein activity	plasma membrane -> plasma membrane	DIG1, FHL1, RAP1, STE12
\|YGR254W\|	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> carbon-oxygen lyase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> intramolecular transferase activity	cytosol -> cytoplasm	GCR1, GCR2, HSF1, RAP1
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MIG1
YGL147C	RPL9A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MBP1, RAP1, SWI4
YDR450W	RPS18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YIL018W	RPL2B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, SWI5, YAP5
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YGL030W	RPL30	protein biosynthesis, rRNA processing, mRNA splicing, regulation of translation -> cell organization and biogenesis, biosynthesis, transcription, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, SFP1
YKL006W	RPL14A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
\|YKL033W\|	NO SYMBOL				RPH1
YPL180W	BIT89	glycerol metabolism -> alcohol metabolism, glycerol ether metabolism, lipid metabolism			REB1, RGT1, SIG1
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
\|YJR139C\|	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> oxidoreductase activity\, acting on CH-OH group of donors		HMS1, RAP1
Main:		biosynthesis (0.77)	structural constituent of ribosome (0.62)	cytoplasm (0.89)	RAP1 (0.82)
Score:		0.63	0.39	0.78	0.753
P-value:		3.000E-06 (biosynthesis)	3.656E-10 (structural constituent of ribosome)	1.315E-11 (cytosolic ribosome (sensu Eukarya))	4.868E-19 (FHL1)

RAP1(1) AND mRRPE(1) => SimExpr(YOL120C) OR SimExpr(other) : 11 2

EXPR: (0.126) mRRPE (P < 0.001) RAP1 (P < 0.093)

ORF	SYMBOL	P	F	C	TF
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> spermine synthase activity
YOL121C	RPS19A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	AZF1, FHL1, GCR1, GCR2, HAL9, MET31, MOT3, PDR1, RAP1, ROX1, RPH1, SMP1, YAP6, ZAP1
YLR003C	NO SYMBOL				ABF1
YDL130W	RPP1B	protein biosynthesis, translational elongation -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAL4, RAP1, RFX1
YOL120C	RPL18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MAL13, RAP1, YAP5
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
YMR014W	BUD22	bud site selection -> cell proliferation, cell organization and biogenesis		nucleus -> nucleus	CUP9, HAL9, HIR2, LEU3, NDD1, RLM1, ROX1, SMP1, YAP6
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
\|YKL072W\|	STB6				ARG81, ARO80, BAS1, CIN5, GCN4, GLN3, HAP3, MCM1, PHD1, REB1, RLM1, YJL206C, ZAP1
YGL030W	RPL30	protein biosynthesis, rRNA processing, mRNA splicing, regulation of translation -> cell organization and biogenesis, biosynthesis, transcription, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, SFP1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> snoRNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
\|YMR013C\|	SEC59	protein-ER targeting, protein amino acid glycosylation -> cell organization and biogenesis, biosynthesis, protein modification, protein metabolism, transport	dolichol kinase activity -> dolichol kinase activity	membrane -> membrane	FHL1, NDD1, RAP1, RLM1, RME1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.82)	structural constituent of ribosome (0.50)	ribonucleoprotein complex (0.80)	RAP1 FHL1 (0.58)
Score:		0.78	0.24	0.64	0.455
P-value:		3.787E-04 (protein biosynthesis)	6.738E-03 (structural constituent of ribosome)	1.933E-04 (ribonucleoprotein complex)	9.215E-07 (FHL1)

RAP1(1) AND SWI5(1) => SimExpr(YOL120C) OR SimExpr(other) : 21 7

EXPR: (0.160) SWI5 (P < 0.000) RAP1 (P < 0.347)

ORF	SYMBOL	P	F	C	TF
YOR312C	RPL20B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, FKH2, GAT3, RAP1
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> adenyl nucleotide binding, P-P-bond-hydrolysis-driven transporter activity, cation transporter activity, hydrolase activity\, acting on acid anhydrides\, catalyzing transmembrane movement of substances, hydrolase activity\, acting on acid anhydrides\, in phosphorus-containing anhydrides	membrane -> membrane	GAL4, SMP1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
\|YBR098W\|	MMS4	DNA repair, meiotic recombination -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	transcription co-activator activity, endonuclease activity -> protein binding, nuclease activity	nucleus -> nucleus
YJR145C	RPS4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
\|YMR224C\|	MRE11	DNA repair, double-strand break repair via nonhomologous end-joining, meiotic DNA double-strand break formation, meiotic DNA double-strand break processing, double-strand break repair via break-induced replication -> DNA metabolism, cell proliferation, catabolism	endonuclease activity, 3'-5' exonuclease activity, protein binding -> nuclease activity, protein binding	nucleus -> nucleus	RAP1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOL120C	RPL18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MAL13, RAP1, YAP5
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> GTPase activator activity	plasma membrane -> membrane	DIG1, FHL1, RAP1, STE12
\|YGL115W\|	SNF4	regulation of transcription from Pol II promoter, peroxisome organization and biogenesis -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein kinase activator activity -> protein kinase activator activity	plasma membrane, nucleus, cytoplasm -> membrane, nucleus, cytoplasm	BAS1, CAD1, MAC1, NRG1, PDR1, RAP1, SMP1, YAP5
\|YPR161C\|	SGV1	transcription, protein amino acid phosphorylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, phosphorus metabolism, protein metabolism	cyclin-dependent protein kinase activity -> phosphotransferase activity\, alcohol group as acceptor	nucleus -> nucleus	RAP1
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
\|YJL217W\|	NO SYMBOL				CIN5, MAC1, PHD1, SWI5, YAP6
YOR213C	SAS5	chromatin silencing at telomere -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	acetyltransferase activity -> transferase activity\, transferring groups other than amino-acyl groups	nuclear chromosome\, telomeric region, nuclear chromatin -> chromosome, nuclear chromosome	GRF10(Pho2), SUM1
YDR450W	RPS18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YBR181C	RPS6B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, MAL13, RAP1, RGM1
\|YGL196W\|	NO SYMBOL
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> adenyl nucleotide binding, P-P-bond-hydrolysis-driven transporter activity, hydrolase activity\, acting on acid anhydrides\, catalyzing transmembrane movement of substances, hydrolase activity\, acting on acid anhydrides\, in phosphorus-containing anhydrides	integral to membrane -> membrane
YNL311C	NO SYMBOL				GCN4, RAP1
YGL030W	RPL30	protein biosynthesis, rRNA processing, mRNA splicing, regulation of translation -> cell organization and biogenesis, biosynthesis, transcription, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, SFP1
YKL006W	RPL14A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
\|YMR013C\|	SEC59	protein-ER targeting, protein amino acid glycosylation -> cell organization and biogenesis, biosynthesis, protein modification, protein metabolism, transport	dolichol kinase activity -> phosphotransferase activity\, alcohol group as acceptor	membrane -> membrane	FHL1, NDD1, RAP1, RLM1, RME1
YLR441C	RPS1A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		protein metabolism (0.68)	structural constituent of ribosome (0.52)	cytoplasm (0.64)	RAP1 (0.80)
Score:		0.50	0.27	0.47	0.717
P-value:		9.616E-08 (protein biosynthesis)	3.728E-08 (structural constituent of ribosome)	4.322E-10 (cytosolic ribosome (sensu Eukarya))	5.171E-18 (RAP1)

RAP1(1) AND STRE(1) => SimExpr(YOL120C) : 5

EXPR: (0.067) STRE (P < 0.000) RAP1 (P < 0.007)

ORF	SYMBOL	P	F	C	TF
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> protein biosynthesis, ribosome biogenesis and assembly	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	FHL1, RAP1
YOL120C	RPL18A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, MAL13, RAP1, YAP5
YNL288W	CAF40	regulation of transcription from Pol II promoter -> regulation of transcription, transcription\, DNA-dependent		CCR4-NOT complex -> nucleoplasm	RAP1
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> protein biosynthesis, ribosome biogenesis and assembly	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, MIG1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		protein biosynthesis (0.80)	structural constituent of ribosome (0.75)	ribosome (0.80)	RAP1 FHL1 (0.60)
Score:		0.60	0.50	0.60	0.500
P-value:		1.007E-02 (protein biosynthesis)	7.656E-03 (structural constituent of ribosome)	1.947E-03 (ribosome)	1.627E-03 (FHL1)

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YOL120C) : 7

EXPR: (0.065) SWI5 (P < 0.000) MCM1' (P < 0.000) RAP1 (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YLR344W	RPL26A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, RAP1
YOL120C	RPL18A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, MAL13, RAP1, YAP5
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, adaptation to pheromone during conjugation with cellular fusion	GTPase activator activity -> GTPase activator activity	plasma membrane -> plasma membrane	DIG1, FHL1, RAP1, STE12
YDR450W	RPS18A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, small ribosomal subunit	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YGL030W	RPL30	protein biosynthesis, rRNA processing, mRNA splicing, regulation of translation -> protein biosynthesis, rRNA processing, mRNA splicing, regulation of translation	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytosolic ribosome (sensu Eukarya), cytoplasm, large ribosomal subunit	FHL1, GAT3, RAP1, SFP1
YKL006W	RPL14A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
YNL069C	RPL16B	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
Main:		protein biosynthesis (0.86)	structural constituent of ribosome (0.86)	cytosolic ribosome (sensu Eukarya) (0.86)	RAP1 FHL1 (1.00)
Score:		0.71	0.71	0.71	1.000
P-value:		9.938E-05 (protein biosynthesis)	1.866E-06 (structural constituent of ribosome)	5.118E-07 (cytosolic ribosome (sensu Eukarya))	1.873E-10 (FHL1)

MCM1(1) AND STRE(1) => SimExpr(YKL035W) OR SimExpr(other) : 5 2

EXPR: (0.173) STRE (P < 0.006) MCM1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YLR028C	ADE16	'de novo' IMP biosynthesis, aerobic respiration, sporulation (sensu Saccharomyces) -> energy pathways, sporulation, biosynthesis, nucleotide metabolism	IMP cyclohydrolase activity, phosphoribosylaminoimidazole-carboxamide formyltransferase activity -> IMP cyclohydrolase activity, phosphoribosylaminoimidazole-carboxamide formyltransferase activity	cytosol -> cytoplasm
YLR201C	NO SYMBOL				ABF1
YJL079C	PRY1			nuclear membrane, endoplasmic reticulum -> nucleus, cytoplasm, endomembrane system	NDD1, PHD1, RAP1
YOL087C	NO SYMBOL				DAL82
\|YJL082W\|	IML2
YKL035W	UGP1	protein amino acid glycosylation, UDP-glucose metabolism -> biosynthesis, alcohol metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism, carbohydrate metabolism	UTP-glucose-1-phosphate uridylyltransferase activity -> UTP-glucose-1-phosphate uridylyltransferase activity
\|YMR291W\|	NO SYMBOL				RAP1
Main:		biosynthesis (1.00)	UTP-glucose-1-phosphate uridylyltransferase activity (0.50)	cytoplasm (1.00)	RAP1 (0.50)
Score:		1.00	0.00	1.00	0.167
P-value:		2.707E+00 (biosynthesis)	1.260E+00 (transferase activity)	4.849E+00 (cytoplasm)	2.885E-01 (RAP1)

ALPHA2(1) AND ALPHA1'(1) AND mRRPE(1) => SimExpr(YNL111C) OR SimExpr(other) : 15 7

EXPR: (0.180) ALPHA2 (P < 0.000) ALPHA1' (P < 0.000) mRRPE (P < 0.033)

ORF	SYMBOL	P	F	C	TF
\|YPL193W\|	RSA1	ribosomal large subunit assembly and maintenance -> cell organization and biogenesis		nucleoplasm -> nucleus
\|YBR213W\|	MET8	sulfate assimilation, siroheme biosynthesis -> sulfur metabolism, pigment metabolism, coenzymes and prosthetic group biosynthesis, coenzymes and prosthetic group metabolism, biosynthesis, heterocycle metabolism	siroheme synthase activity, ferrochelatase activity -> siroheme synthase activity, other lyase activity		IME4
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YJR070C	NO SYMBOL				GAT3, YAP5
\|YDR297W\|	SUR2	sphingolipid metabolism, sphingolipid biosynthesis -> lipid metabolism, biosynthesis	sphingosine hydroxylase activity -> sphingosine hydroxylase activity	endoplasmic reticulum -> cytoplasm	CBF1, MTH1
\|YPR036W\|	VMA13	vacuolar acidification -> cell homeostasis, cell organization and biogenesis, transport	hydrogen-exporting ATPase activity -> purine nucleotide binding, cation transporter activity, primary active transporter activity, hydrolase activity\, acting on acid anhydrides	hydrogen-transporting ATPase V1 domain, vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YJL110C	GZF3	regulation of nitrogen utilization, nitrogen metabolism, negative regulation of transcription from Pol II promoter -> nitrogen metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ABF1, SIP4
\|YIL014W\|	MNT3	O-linked glycosylation -> biosynthesis, protein metabolism	alpha-1\,3-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups		AZF1, GCR2, HIR1, RME1, ROX1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YOL014W	NO SYMBOL
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
YGL195W	GCN1	regulation of translational elongation -> biosynthesis, protein metabolism		cytosol, cytosolic ribosome (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	ABF1, GCR1, HAP3, MAC1, RLM1, ROX1
YNR054C	NO SYMBOL				HAP3, HAP5, IXR1, MCM1, RTG3, SFP1, SWI6
\|YBR294W\|	SUL1	sulfate transport -> transport	sulfate transporter activity -> anion transporter activity	plasma membrane -> plasma membrane	STB1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR023W	SES1	amino acid activation -> biosynthesis, protein metabolism	serine-tRNA ligase activity -> ligase activity\, forming carbon-oxygen bonds, ligase activity\, forming phosphoric ester bonds	cytoplasm -> cytoplasm	GRF10(Pho2), MOT3
YGR001C	NO SYMBOL
YDL167C	NRP1
Main:		biosynthesis (0.53)	transferase activity\, transferring glycosyl groups (0.23)	cytoplasm (0.46)	ABF1 (0.25)
Score:		0.49	0.06	0.35	0.083
P-value:		1.118E-02 (ribosome biogenesis and assembly)	3.497E-01 (mannosyltransferase activity)	6.936E-01 (nucleolus)	5.474E-01 (ROX1)

ALPHA1(1) AND ALPHA2(1) AND SWI5(1) AND SCB(1) => SimExpr(YNL111C) OR SimExpr(other) : 11 3

EXPR: (0.174) ALPHA2 (P < 0.002) SWI5 (P < 0.002) SCB (P < 0.002) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YLR272C	YCS4	mitotic chromosome condensation -> cell proliferation, cell cycle		nuclear condensin complex -> chromosome, nucleus
YIL035C	CKA1	flocculation, protein amino acid phosphorylation, cell ion homeostasis, G1/S transition of mitotic cell cycle, G2/M transition of mitotic cell cycle, establishment of cell polarity (sensu Saccharomyces), regulation of transcription from Pol I promoter, regulation of transcription from Pol III promoter, response to DNA damage -> cell adhesion, phosphorus metabolism, cell homeostasis, cell proliferation, transcription, response to biotic stimulus, cell organization and biogenesis, protein metabolism	protein kinase CK2 activity -> protein kinase CK2 activity	protein kinase CK2 complex -> protein kinase CK2 complex	ABF1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YLL032C	NO SYMBOL				FZF1, GCR2, SRD1
YHR046C	INM1	myo-inositol metabolism -> alcohol metabolism, carbohydrate metabolism	myo-inositol-1(or 4)-monophosphatase activity -> myo-inositol-1(or 4)-monophosphatase activity
\|YOR188W\|	MSB1	establishment of cell polarity (sensu Saccharomyces) -> cell organization and biogenesis		bud neck, bud tip -> site of polarized growth (sensu Fungi)
YPR195C	NO SYMBOL				FKH1, FKH2, HIR1, HIR2, INO4, RLM1
\|YPR185W\|	APG13	protein-vacuolar targeting, autophagy -> cell organization and biogenesis, autophagy, protein metabolism, transport	protein binding -> protein binding	extrinsic to membrane -> extrinsic to membrane	MET4, SWI6
YKL209C	STE6	peptide pheromone export -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> integral to membrane, site of polarized growth (sensu Fungi), plasma membrane	MCM1, STE12
\|YOR111W\|	NO SYMBOL				UGA3
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR001C	NO SYMBOL
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> rRNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.40)	translation elongation factor activity (0.12)	cytoplasm (0.22)	ABF1 INO4 (0.30)
Score:		0.36	0.00	0.08	0.178
P-value:		7.522E-01 (establishment of cell polarity (sensu Fungi))	3.763E+00 (transporter activity)	8.723E-01 (site of polarized growth (sensu Saccharomyces))	1.824E-01 (INO4)

ALPHA1(1) AND ALPHA2(1) AND SFF'(1) AND mRRPE(1) AND SCB(1) => SimExpr(YNL111C) OR SimExpr(other) : 5 2

EXPR: (0.129) ALPHA2 (P < 0.005) SFF' (P < 0.001) mRRPE (P < 0.019) SCB (P < 0.006) ALPHA1 (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YLL032C	NO SYMBOL				FZF1, GCR2, SRD1
\|YOR188W\|	MSB1	establishment of cell polarity (sensu Saccharomyces) -> cell organization and biogenesis		bud neck, bud tip -> bud neck, bud tip
YDR040C	ENA1	sodium ion transport -> transport	P-type ATPase activity -> P-type ATPase activity	plasma membrane -> plasma membrane	NRG1, SOK2
YNL123W	NO SYMBOL				ARO80
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> microsome	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YMR164C\|	MSS11	positive regulation of transcription from Pol II promoter, starch catabolism, pseudohyphal growth -> carbohydrate metabolism, cell organization and biogenesis, polysaccharide metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, catabolism	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		cell organization and biogenesis (0.40)	translation elongation factor activity (0.25)	microsome (0.20)	GCR2 NRG1 (0.40)
Score:		0.20	0.00	0.00	0.200
P-value:		3.610E+00 (biosynthesis)	8.559E-01 (transporter activity)	4.000E+00 (intracellular)	8.556E-02 (GCR2)

ALPHA1(1) AND ALPHA2(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YNL111C) OR SimExpr(other) : 9 2

EXPR: (0.156) ALPHA2 (P < 0.000) SFF (P < 0.000) SWI5 (P < 0.000) SCB (P < 0.003) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YLR272C	YCS4	mitotic chromosome condensation -> cell proliferation, cell cycle		nuclear condensin complex -> chromosome, nucleus
YIL035C	CKA1	flocculation, protein amino acid phosphorylation, cell ion homeostasis, G1/S transition of mitotic cell cycle, G2/M transition of mitotic cell cycle, establishment of cell polarity (sensu Saccharomyces), regulation of transcription from Pol I promoter, regulation of transcription from Pol III promoter, response to DNA damage -> cell adhesion, phosphorus metabolism, cell homeostasis, cell proliferation, transcription, response to biotic stimulus, cell organization and biogenesis, protein metabolism	protein kinase CK2 activity -> protein kinase CK2 activity	protein kinase CK2 complex -> protein kinase CK2 complex	ABF1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YLL032C	NO SYMBOL				FZF1, GCR2, SRD1
\|YOR188W\|	MSB1	establishment of cell polarity (sensu Saccharomyces) -> cell organization and biogenesis		bud neck, bud tip -> site of polarized growth (sensu Fungi)
YPR195C	NO SYMBOL				FKH1, FKH2, HIR1, HIR2, INO4, RLM1
\|YPR185W\|	APG13	protein-vacuolar targeting, autophagy -> cell organization and biogenesis, autophagy, protein metabolism, transport	protein binding -> protein binding	extrinsic to membrane -> extrinsic to membrane	MET4, SWI6
YKL209C	STE6	peptide pheromone export -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> integral to membrane, site of polarized growth (sensu Fungi), plasma membrane	MCM1, STE12
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> rRNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.44)	translation elongation factor activity (0.14)	cytoplasm (0.22)	ABF1 INO4 (0.33)
Score:		0.42	0.00	0.08	0.222
P-value:		4.531E-01 (establishment of cell polarity (sensu Fungi))	2.447E+00 (transporter activity)	5.606E-01 (site of polarized growth (sensu Saccharomyces))	8.479E-02 (INO4)

ALPHA1(1) AND ALPHA2(1) AND SFF(1) AND mRRPE(1) AND SCB(1) => SimExpr(YNL111C) OR SimExpr(other) : 5 1

EXPR: (0.115) ALPHA2 (P < 0.002) SFF (P < 0.000) mRRPE (P < 0.019) SCB (P < 0.001) ALPHA1 (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YLL032C	NO SYMBOL				FZF1, GCR2, SRD1
\|YOR188W\|	MSB1	establishment of cell polarity (sensu Saccharomyces) -> cell organization and biogenesis		bud neck, bud tip -> bud neck, bud tip
YDR040C	ENA1	sodium ion transport -> transport	P-type ATPase activity -> P-type ATPase activity	plasma membrane -> plasma membrane	NRG1, SOK2
YNL123W	NO SYMBOL				ARO80
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> microsome	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		biosynthesis (0.50)	translation elongation factor activity (0.33)	microsome (0.25)	GCR2 NRG1 (0.40)
Score:		0.17	0.00	0.00	0.200
P-value:		2.587E+00 (biosynthesis)	6.637E-01 (transporter activity)	3.000E+00 (cell)	6.187E-02 (GCR2)

CSRE(1) AND mRRPE(1) AND SWI5(1) => SimExpr(YNL111C) OR SimExpr(other) : 8 3

EXPR: (0.176) mRRPE (P < 0.087) SWI5 (P < 0.002) CSRE (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
\|YAR062W\|	NO SYMBOL
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
YOR063W	RPL3	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	GRF10(Pho2)
\|YKL093W\|	MBR1	aerobic respiration -> energy pathways
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YKL181W	PRS1	histidine biosynthesis, tryptophan biosynthesis, purine salvage, 'de novo' IMP biosynthesis, 'de novo' pyrimidine base biosynthesis -> amine metabolism, nucleotide biosynthesis, purine ribonucleotide metabolism, aromatic compound metabolism, amino acid derivative biosynthesis, biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, amino acid and derivative metabolism, organic acid metabolism, heterocycle metabolism	ribose-phosphate pyrophosphokinase activity -> carbohydrate kinase activity, transferase activity\, transferring phosphorus-containing groups
\|YHR213W\|	NO SYMBOL				PHD1
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR342C	NO SYMBOL				RAP1
Main:		biosynthesis (0.50)	transferase activity\, transferring phosphorus-containing groups (0.40)	nucleus (0.60)	ABF1 ROX1 (0.33)
Score:		0.50	0.10	0.40	0.133
P-value:		2.375E-02 (purine nucleotide metabolism)	1.239E+00 (transferase activity\, transferring phosphorus-containing groups)	4.724E-01 (nucleolus)	3.000E-01 (ROX1)

REB1(1) AND SWI5(1) AND SCB(1) => SimExpr(YNL111C) OR SimExpr(other) : 6 2

REB1(1) AND PAC(1) => SimExpr(YML043C) OR SimExpr(other) : 6 1

REB1(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YML043C) : 5

REB1(1) AND PAC(1) => SimExpr(YNL308C) OR SimExpr(other) : 6 1

SFF'(1) AND STE12(1) AND PAC(1) => SimExpr(YNL308C) OR SimExpr(other) : 5 1

EXPR: (0.146) SFF' (P < 0.000) STE12 (P < 0.014) PAC (P < 0.294)

ORF	SYMBOL	P	F	C	TF
\|YKL142W\|	MRP8	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	mitochondrial ribosome -> cytoplasm, ribonucleoprotein complex	ACE2, CIN5, MBP1, PHO4, REB1, SKN7, STB1
YNL308C	KRI1	ribosome biogenesis -> ribosome biogenesis		nucleolus -> nucleus
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> RNA modification, ribosome biogenesis, rRNA metabolism, RNA processing, transcription from Pol I promoter	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, HIR1, RCS1
YJL069C	UTP18				ABF1
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> ribosome biogenesis, mRNA catabolism, RNA processing, transcription from Pol I promoter	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> exosome (RNase complex), cytoplasm, nucleus	ZMS1
Main:		ribosome biogenesis (0.75)	RNA binding (0.67)	nucleus (0.75)	ABF1 SKN7 (0.40)
Score:		0.50	0.33	0.83	0.200
P-value:		1.841E-02 (ribosome biogenesis)	3.259E-01 (RNA binding)	1.673E-01 (nucleolus)	2.060E-01 (SKN7)

mRRPE(1) AND STE12(1) AND PAC(1) => SimExpr(YNL308C) : 5

EXPR: (0.073) mRRPE (P < 0.000) STE12 (P < 0.000) PAC (P < 0.003)

ORF	SYMBOL	P	F	C	TF
YNL308C	KRI1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> nucleolus
YAL059W	ECM1	cell wall organization and biogenesis -> cell growth and/or maintenance			MOT3
YBR247C	ENP1	processing of 20S pre-rRNA, rRNA processing, cell growth and/or maintenance -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> snoRNA binding	nucleolus, nucleus -> nucleolus, nucleus
YMR310C	NO SYMBOL
YJL069C	UTP18				ABF1
Main:		cell growth and/or maintenance (1.00)	snoRNA binding (1.00)	nucleolus (1.00)	ABF1 (0.50)
Score:		1.00	0.00	1.00	0.000
P-value:		1.232E-01 (ribosome biogenesis)	0.000E+00	8.582E-02 (nucleolus)	1.782E-01 (MOT3)

REB1(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YNL308C) : 5

REB1(1) AND SWI5(1) AND SCB(1) => SimExpr(YOL006C) OR SimExpr(other) : 6 2

REB1(1) AND ALPHA1'(1) AND SFF'(1) AND SWI5(1) AND SCB(1) => SimExpr(YOL006C) : 6

EXPR: (0.086) ALPHA1' (P < 0.000) SFF' (P < 0.000) SWI5 (P < 0.000) REB1 (P < 0.000) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YPL237W	SUI3	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation initiation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
Main:		biosynthesis (0.67)	RNA binding (0.33)	cytoplasm (0.50)	REB1 (1.00)
Score:		0.47	0.07	0.27	1.000
P-value:		2.814E-01 (biosynthesis)	3.587E-01 (nucleic acid binding)	6.051E-01 (ribosome)	1.337E-04 (REB1)

REB1(1) AND ALPHA1'(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YOL006C) : 5

EXPR: (0.073) ALPHA1' (P < 0.000) SFF (P < 0.000) SWI5 (P < 0.000) REB1 (P < 0.000) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
Main:		biosynthesis (0.60)	RNA binding (0.40)	cytoplasm (0.40)	REB1 (1.00)
Score:		0.40	0.10	0.20	1.000
P-value:		9.206E-01 (biosynthesis)	2.735E-01 (RNA binding)	3.365E+00 (nucleus)	4.585E-05 (REB1)

REB1(1) AND PAC(1) => SimExpr(YPL266W) OR SimExpr(other) : 6 1

CSRE(1) AND ALPHA2(1) AND SWI5(1) => SimExpr(YOR152C) OR SimExpr(other) : 9 4

EXPR: (0.223) ALPHA2 (P < 0.000) SWI5 (P < 0.000) CSRE (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YMR118C	NO SYMBOL				GTS1
YOL048C	NO SYMBOL				SKN7
YMR250W	GAD1	response to oxidative stress, glutamate catabolism -> oxygen and reactive oxygen species metabolism, amine metabolism, amino acid and derivative metabolism, organic acid metabolism, response to biotic stimulus, catabolism	glutamate decarboxylase activity -> carbon-carbon lyase activity	cytoplasm -> cytoplasm
YJL161W	NO SYMBOL				GRF10(Pho2), MAL13, NDD1
YJR019C	TES1	fatty acid oxidation -> lipid metabolism, organic acid metabolism	acyl-CoA thioesterase activity -> hydrolase activity\, acting on ester bonds	peroxisome -> cytoplasm	DAL82, MTH1
\|YOL055C\|	THI20	thiamin biosynthesis -> biosynthesis, vitamin metabolism	phosphomethylpyrimidine kinase activity -> transferase activity\, transferring phosphorus-containing groups
YMR148W	NO SYMBOL
YLR377C	FBP1	gluconeogenesis -> alcohol metabolism, carbohydrate metabolism, biosynthesis, energy pathways	fructose-bisphosphatase activity -> hydrolase activity\, acting on ester bonds	cytosol -> cytoplasm
\|YNL111C\|	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YHR090C	YNG2	chromatin modification -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	enzyme activator activity -> enzyme activator activity	histone acetyltransferase complex, nucleus -> nucleus	ABF1, FKH1
\|YKR003W\|	OSH6	steroid biosynthesis -> biosynthesis, lipid metabolism	oxysterol binding -> oxysterol binding
\|YOR348C\|	PUT4	neutral amino acid transport -> transport	amino acid permease activity, neutral amino acid transporter activity -> carboxylic acid transporter activity, polyamine transporter activity, electrochemical potential-driven transporter activity	plasma membrane -> plasma membrane	SWI5
YOR152C	NO SYMBOL				HIR2
Main:		biosynthesis (0.50)	hydrolase activity\, acting on ester bonds (0.25)	cytoplasm (0.50)	ABF1 GTS1 (0.25)
Score:		0.32	0.04	0.20	0.071
P-value:		1.166E-01 (steroid biosynthesis)	1.227E+00 (hydrolase activity\, acting on ester bonds)	4.985E+00 (cytoplasm)	2.014E-01 (GTS1)

REB1(1) AND SWI5(1) AND SCB(1) => SimExpr(YPL237W) OR SimExpr(other) : 6 2

REB1(1) AND ALPHA1'(1) AND SFF'(1) AND SCB(1) => SimExpr(YPL237W) OR SimExpr(other) : 8 2

EXPR: (0.153) ALPHA1' (P < 0.000) SFF' (P < 0.000) REB1 (P < 0.000) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YML043C	RRN11	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> nucleus	MAL13
YPL237W	SUI3	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation initiation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex
\|YGR179C\|	OKP1	chromosome segregation -> cell proliferation	protein binding -> protein binding	condensed nuclear chromosome kinetochore -> condensed chromosome, chromosome, nucleus	REB1
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
\|YKR015C\|	NO SYMBOL				ABF1, REB1, SUM1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YLR378C	SEC61	SRP-dependent cotranslational membrane targeting\, translocation -> cell organization and biogenesis, protein metabolism, transport	protein transporter activity -> protein transporter activity	endoplasmic reticulum membrane, endoplasmic reticulum lumen, translocon -> cytoplasm, endoplasmic reticulum, endomembrane system	MAL13, REB1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
Main:		biosynthesis (0.44)	protein binding (0.22)	cytoplasm (0.44)	REB1 (0.88)
Score:		0.39	0.06	0.33	0.786
P-value:		8.618E-01 (transcription from Pol I promoter)	1.069E+00 (protein binding)	4.028E-01 (endoplasmic reticulum membrane)	5.533E-08 (REB1)

REB1(1) AND ALPHA1'(1) AND SWI5(1) AND SCB(1) => SimExpr(YPL237W) OR SimExpr(other) : 6 1

EXPR: (0.167) ALPHA1' (P < 0.000) SWI5 (P < 0.002) REB1 (P < 0.002) SCB (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YPL237W	SUI3	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation initiation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
\|YMR002W\|	NO SYMBOL				NDD1, REB1, SWI6
Main:		biosynthesis (0.67)	RNA binding (0.33)	cytoplasm (0.50)	REB1 (1.00)
Score:		0.47	0.07	0.27	1.000
P-value:		4.689E-01 (protein biosynthesis)	5.219E-01 (RNA binding)	8.041E-01 (ribosome)	8.614E-06 (REB1)

REB1(1) AND ALPHA1'(1) AND SFF'(1) AND SWI5(1) AND SCB(1) => SimExpr(YPL237W) : 6

REB1(1) AND SFF'(1) AND SWI5(1) AND SCB(1) => SimExpr(YDL232W) OR SimExpr(other) : 6 1

EXPR: (0.141) SFF' (P < 0.000) SWI5 (P < 0.001) REB1 (P < 0.007) SCB (P < 0.004)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YPL237W	SUI3	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation initiation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YMR186W\|	HSC82	protein folding, response to stress -> protein metabolism, response to stress	cation-transporting ATPase activity, chaperone activity -> cation-transporting ATPase activity, chaperone activity		BAS1, HAP2, HSF1, INO4, REB1, ROX1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
Main:		biosynthesis (0.57)	RNA binding (0.29)	cytoplasm (0.50)	REB1 (1.00)
Score:		0.48	0.05	0.27	1.000
P-value:		4.689E-01 (protein biosynthesis)	2.080E-01 (binding)	8.041E-01 (ribosome)	1.077E-05 (REB1)

REB1(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YDL232W) OR SimExpr(other) : 5 1

EXPR: (0.147) SFF (P < 0.001) SWI5 (P < 0.003) REB1 (P < 0.007) SCB (P < 0.007)

ORF	SYMBOL	P	F	C	TF
YDL232W	OST4	N-linked glycosylation -> biosynthesis, protein metabolism	dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging -> dolichyl-diphospho-oligosaccharide-protein glycosyltransferase activity, protein binding\, bridging	endoplasmic reticulum membrane -> cytoplasm, endomembrane system	REB1
YMR121C	RPL15B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	REB1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YMR186W\|	HSC82	protein folding, response to stress -> protein metabolism, response to stress	cation-transporting ATPase activity, chaperone activity -> cation-transporting ATPase activity, chaperone activity		BAS1, HAP2, HSF1, INO4, REB1, ROX1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL006C	TOP1	negative regulation of recombination within rDNA repeats, DNA topological change, DNA strand elongation, chromatin assembly/disassembly, regulation of transcription from Pol II promoter, RNA elongation from Pol II promoter, mitotic chromosome condensation, nuclear migration -> cell organization and biogenesis, cell cycle, mitotic cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA topoisomerase type I activity -> DNA topoisomerase type I activity	nucleus -> nucleus	REB1
Main:		biosynthesis (0.50)	RNA binding (0.33)	cytoplasm (0.40)	REB1 (1.00)
Score:		0.40	0.07	0.20	1.000
P-value:		1.406E+00 (metabolism)	4.562E-01 (RNA binding)	4.023E+00 (nucleus)	3.167E-06 (REB1)

REB1(1) AND ALPHA1'(1) AND SFF'(1) AND SWI5(1) AND SCB(1) => SimExpr(YDL232W) : 6

REB1(1) AND ALPHA1'(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YDL232W) : 5

REB1(1) AND PAC(1) => SimExpr(YOR021C) OR SimExpr(other) : 6 1

REB1(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YOR021C) : 5

Gcr1(1) AND PAC(1) => SimExpr(YOR272W) OR SimExpr(other) : 5 1

EXPR: (0.160) Gcr1 (P < 0.008) PAC (P < 0.450)

ORF	SYMBOL	P	F	C	TF
\|YIL122W\|	POG1	re-entry into mitotic cell cycle after pheromone arrest -> regulation of cell cycle, conjugation with cellular fusion, perception of chemical substance, sensory perception	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ASH1, CIN5, NRG1, RLM1, SMP1, YAP6
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> RNA processing, tRNA metabolism	pseudouridylate synthase activity -> pseudouridylate synthase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> chromosome organization and biogenesis (sensu Eukarya), ribosome biogenesis and assembly		nucleus, nucleolus -> nucleus	LEU3, PUT3, REB1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent		nucleolus -> nucleus
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
Main:		RNA processing (0.50)	specific RNA polymerase II transcription factor activity (0.50)	nucleus (1.00)	ABF1 (0.20)
Score:		0.33	0.00	1.00	0.000
P-value:		2.602E-01 (ribosome biogenesis)	2.000E+00	1.255E-01 (nucleolus)	6.908E-01 (PUT3)

REB1(1) AND PAC(1) => SimExpr(YOR272W) OR SimExpr(other) : 6 1

REB1(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YOR272W) : 5

REB1(1) AND SFF'(1) AND SWI5(1) AND SCB(1) => SimExpr(YMR121C) OR SimExpr(other) : 6 1

REB1(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YMR121C) OR SimExpr(other) : 5 1

REB1(1) AND ALPHA1'(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YMR121C) : 5

REB1(1) AND ALPHA1'(1) AND SFF'(1) AND SWI5(1) AND SCB(1) => SimExpr(YMR121C) : 6

RAP1(1) AND SWI5(1) => SimExpr(YJR145C) OR SimExpr(other) : 21 7

CSRE(1) AND RAP1(1) => SimExpr(YJR145C) OR SimExpr(other) : 12 2

EXPR: (0.127) CSRE (P < 0.000) RAP1 (P < 0.089)

ORF	SYMBOL	P	F	C	TF
YOR312C	RPL20B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, FKH2, GAT3, RAP1
YPL090C	RPS6A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, INO4, RAP1, YAP5
YJR145C	RPS4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR096W	RPS7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, FKH2, RAP1
\|YGR254W\|	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> phosphopyruvate hydratase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> phosphoglycerate mutase activity	cytosol -> cytoplasm	GCR1, GCR2, HSF1, RAP1
YGL147C	RPL9A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MBP1, RAP1, SWI4
YOR213C	SAS5	chromatin silencing at telomere -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	acetyltransferase activity -> acetyltransferase activity	nuclear chromosome\, telomeric region, nuclear chromatin -> chromosome, nuclear chromosome	GRF10(Pho2), SUM1
YDR450W	RPS18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
\|YKL033W\|	NO SYMBOL				RPH1
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
Main:		biosynthesis (0.85)	structural constituent of ribosome (0.69)	cytoplasm (0.85)	RAP1 (0.71)
Score:		0.73	0.49	0.82	0.549
P-value:		8.373E-05 (protein biosynthesis)	8.683E-08 (structural constituent of ribosome)	1.268E-08 (cytosolic ribosome (sensu Eukarya))	4.576E-10 (FHL1)

CSRE(1) AND RAP1(1) AND SWI5(1) => SimExpr(YJR145C) : 6

EXPR: (0.059) SWI5 (P < 0.000) CSRE (P < 0.000) RAP1 (P < 0.004)

ORF	SYMBOL	P	F	C	TF
YOR312C	RPL20B	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, FKH2, GAT3, RAP1
YJR145C	RPS4A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> cytosolic ribosome (sensu Eukarya), cytoplasm, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, small ribosomal subunit	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YLR344W	RPL26A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, RAP1
YOR213C	SAS5	chromatin silencing at telomere -> chromatin silencing at telomere	acetyltransferase activity -> acetyltransferase activity	nuclear chromosome\, telomeric region, nuclear chromatin -> nuclear chromosome\, telomeric region, nuclear chromatin	GRF10(Pho2), SUM1
YDR450W	RPS18A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, small ribosomal subunit	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YNL069C	RPL16B	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
Main:		protein biosynthesis (0.83)	structural constituent of ribosome (0.83)	cytosolic ribosome (sensu Eukarya) (0.83)	RAP1 FHL1 (0.83)
Score:		0.67	0.67	0.67	0.667
P-value:		6.996E-04 (protein biosynthesis)	2.807E-05 (structural constituent of ribosome)	1.419E-05 (cytosolic ribosome (sensu Eukarya))	1.685E-06 (FHL1)

ABF1(1) AND PAC(1) => SimExpr(YPR010C) OR SimExpr(other) : 11 5

EXPR: (0.176) ABF1 (P < 0.000) PAC (P < 0.009)

ORF	SYMBOL	P	F	C	TF
\|YLR197W\|	SIK1	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex, nucleus, nucleolus -> nucleus, ribonucleoprotein complex	DAL81, HAL9
\|YHR027C\|	RPN1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	endopeptidase activity, receptor activity -> peptidase activity, receptor activity	proteasome regulatory particle (sensu Eukarya), endoplasmic reticulum, cytoplasm -> cytoplasm, nucleus
YOL041C	NOP12	rRNA metabolism -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus	GTS1, MET31
YJL050W	MTR4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YNR046W	NO SYMBOL				ABF1
\|YNL292W\|	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
\|YGR187C\|	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YDR527W	NO SYMBOL				ABF1, SKN7
\|YKL172W\|	EBP2	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus	ABF1, FZF1, RFX1
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
YKL078W	DHR2	ribosome biogenesis -> cell organization and biogenesis	RNA helicase activity -> RNA binding	nucleolus -> nucleus	ABF1
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YJL069C	UTP18				ABF1
YKL014C	NO SYMBOL				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.67)	RNA binding (0.62)	nucleus (0.90)	ABF1 (0.62)
Score:		0.61	0.36	0.80	0.385
P-value:		1.075E-02 (ribosome biogenesis and assembly)	3.026E-03 (RNA helicase activity)	6.686E-06 (nucleolus)	5.587E-05 (ABF1)

mRRPE(1) AND PAC(1) => SimExpr(YOR310C) OR SimExpr(other) : 75 10

mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YOR310C) OR SimExpr(other) : 20 2

mRRPE(1) AND SWI5(1) AND PAC(1) => SimExpr(YOR310C) OR SimExpr(other) : 14 3

EXPR: (0.136) mRRPE (P < 0.002) SWI5 (P < 0.000) PAC (P < 0.072)

ORF	SYMBOL	P	F	C	TF
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YHR089C	GAR1	rRNA modification, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	RNA binding -> RNA binding	nucleolus, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	CBF1, FZF1
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YNR024W	NO SYMBOL
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell organization and biogenesis	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, transport	protein carrier activity -> protein carrier activity	cytoplasm, nuclear pore -> cytoplasm, nucleus, integral to membrane, endomembrane system	MSN2
\|YPR010C\|	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.62)	RNA binding (0.50)	nucleus (0.83)	GCR2 ARG80 RLM1 MSN2 SWI5 MSN4 SWI6 HIR1 GTS1 (0.18)
Score:		0.59	0.24	0.79	0.127
P-value:		1.808E-05 (transcription from Pol I promoter)	3.225E-02 (snoRNA binding)	1.888E-05 (nucleolus)	9.958E-02 (MSN2)

mRRPE(1) AND PAC(1) AND MCM1'(1) => SimExpr(YOR310C) OR SimExpr(other) : 13 4

EXPR: (0.133) mRRPE (P < 0.002) PAC (P < 0.045) MCM1' (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YBR267W	NO SYMBOL
YPL043W	NOP4	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YGR159C	NSR1	ribosomal small subunit assembly and maintenance, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	single-stranded DNA binding, RNA binding -> DNA binding, RNA binding	nucleolus, nucleus -> nucleus
YML093W	UTP14	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YGL169W\|	SUA5	cell growth and/or maintenance -> cell growth and/or maintenance			ABF1
\|YIL122W\|	POG1	re-entry into mitotic cell cycle after pheromone arrest -> cell growth and/or maintenance, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ASH1, CIN5, NRG1, RLM1, SMP1, YAP6
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YDR365C	NO SYMBOL				ABF1, MSS11, YJL206C
YMR049C	ERB1	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YCR016W	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
Main:		cell growth and/or maintenance (0.75)	RNA binding (0.50)	nucleus (1.00)	ABF1 (0.33)
Score:		0.77	0.25	1.00	0.167
P-value:		4.295E-06 (rRNA processing)	3.225E-02 (transferase activity\, transferring pentosyl groups)	2.154E-04 (nucleolus)	1.000E+00

mRRPE(1) AND SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YOR310C) : 6

EXPR: (0.068) mRRPE (P < 0.000) SWI5 (P < 0.000) PAC (P < 0.002) SCB (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.80)	RNA binding (0.50)	nucleus (0.75)	ABF1 (0.33)
Score:		0.70	0.17	0.83	0.000
P-value:		8.937E-03 (rRNA processing)	2.989E-01 (nucleic acid binding)	6.832E-03 (small nucleolar ribonucleoprotein complex)	7.280E-01 (GTS1)

ALPHA1'(1) AND SFF(1) AND PDR(1) AND SWI5(1) => SimExpr(YLR152C) OR SimExpr(other) : 7 3

EXPR: (0.160) ALPHA1' (P < 0.000) SFF (P < 0.000) PDR (P < 0.000) SWI5 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YNL144C	NO SYMBOL				RAP1
YNL033W	NO SYMBOL				GAT1, MAL13
YNL019C	NO SYMBOL
\|YPR036W\|	VMA13	vacuolar acidification -> cell homeostasis, cell organization and biogenesis, transport	hydrogen-exporting ATPase activity -> hydrogen-exporting ATPase activity	hydrogen-transporting ATPase V1 domain, vacuolar membrane (sensu Fungi) -> hydrogen-transporting ATPase V1 domain, vacuolar membrane (sensu Fungi)
\|YGR287C\|	NO SYMBOL
YOL159C	NO SYMBOL				ARO80, CIN5, RLM1
YDR343C	HXT6	hexose transport -> transport	glucose transporter activity, fructose transporter activity, mannose transporter activity -> glucose transporter activity, fructose transporter activity, mannose transporter activity	plasma membrane -> plasma membrane	CIN5, INO4, NRG1, PHD1
YJR155W	AAD10	aldehyde metabolism -> aldehyde metabolism	benzyl alcohol dehydrogenase activity -> benzyl alcohol dehydrogenase activity
YLR152C	NO SYMBOL				GRF10(Pho2), PHO4, PUT3
\|YFR022W\|	NO SYMBOL
Main:		transport (0.67)	hydrogen-exporting ATPase activity (0.33)	vacuolar membrane (sensu Fungi) (0.50)	CIN5 (0.40)
Score:		0.33	0.00	0.00	0.100
P-value:		3.919E+00 (transport)	1.443E+00 (transporter activity)	2.912E+00 (membrane)	8.516E-01 (PUT3)

LYS14(1) AND SFF(1) AND SFF'(1) AND ATRepeat(1) => SimExpr(YKL077W) OR SimExpr(other) : 7 3

EXPR: (0.187) LYS14 (P < 0.003) SFF (P < 0.007) SFF' (P < 0.007) ATRepeat (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YNL122C\|	NO SYMBOL				ARO80
YKL077W	NO SYMBOL				CHA4, GCR1, HAP3, HIR1, IXR1, REB1, STP1
YMR321C	NO SYMBOL
YKL054C	DEF1	response to DNA damage, ubiquitin-dependent protein catabolism -> response to biotic stimulus, catabolism, protein metabolism		nucleus -> nucleus
YBR115C	LYS2	lysine biosynthesis\, aminoadipic pathway -> amine metabolism, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	aminoadipate-semialdehyde dehydrogenase activity -> oxidoreductase activity\, acting on the aldehyde or oxo group of donors	cytoplasm -> cytoplasm	DAL81, GCN4
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> intramolecular transferase activity	cytosol -> cytoplasm	GCR1, GCR2, HSF1, RAP1
YNL102W	POL1	DNA replication\, priming, DNA replication initiation, lagging strand elongation, DNA repair synthesis -> DNA metabolism, cell proliferation	alpha DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	alpha DNA polymerase\:primase complex -> nucleus	LEU3, MBP1
\|YOR348C\|	PUT4	neutral amino acid transport -> transport	amino acid permease activity, neutral amino acid transporter activity -> carboxylic acid transporter activity, polyamine transporter activity, electrochemical potential-driven transporter activity	plasma membrane -> plasma membrane	SWI5
YDR226W	ADK1	cell proliferation -> cell proliferation	adenylate kinase activity -> transferase activity\, transferring phosphorus-containing groups	cytoplasm, mitochondrial intermembrane space -> cytoplasm	PUT3
\|YNL246W\|	VPS75	protein-vacuolar targeting -> cell organization and biogenesis, protein metabolism, transport			AZF1, SIG1, STP2
Main:		biosynthesis (0.29)	transferase activity\, transferring phosphorus-containing groups (0.40)	cytoplasm (0.50)	GCR1 (0.25)
Score:		0.24	0.10	0.27	0.036
P-value:		2.148E+00 (catabolism)	1.072E+00 (transferase activity\, transferring phosphorus-containing groups)	5.453E+00 (nucleus)	9.644E-02 (GCR1)

CSRE(1) AND RAP1(1) => SimExpr(YOR312C) OR SimExpr(other) : 12 2

CSRE(1) AND RAP1(1) AND SWI5(1) => SimExpr(YOR312C) : 6

PAC(1) AND MCM1'(1) AND SCB(1) => SimExpr(YDR399W) OR SimExpr(other) : 8 3

EXPR: (0.178) PAC (P < 0.384) MCM1' (P < 0.001) SCB (P < 0.008)

ORF	SYMBOL	P	F	C	TF
YGR159C	NSR1	ribosomal small subunit assembly and maintenance, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	single-stranded DNA binding, RNA binding -> DNA binding, RNA binding	nucleolus, nucleus -> intracellular
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> intracellular	RFX1, STB1
YBR034C	HMT1	peptidyl-arginine modification, mRNA-nucleus export -> protein metabolism, transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein-arginine N-methyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleus -> intracellular
\|YBL099W\|	ATP1	ATP synthesis coupled proton transport -> transport	hydrogen-transporting ATP synthase activity -> cation transporter activity	proton-transporting ATP synthase\, catalytic core (sensu Eukarya) -> intracellular, integral to membrane, inner membrane	HAP4, ROX1
\|YIL099W\|	SGA1	sporulation (sensu Saccharomyces) -> sporulation	glucan 1\,4-alpha-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	vacuole (sensu Fungi) -> intracellular	ASH1, CIN5, CUP9, MOT3, NRG1, PHD1, ROX1, SKN7, SOK2, YAP6
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> intracellular	ABF1, SWI6
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> intracellular
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell organization and biogenesis, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> intracellular	ZMS1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.64)	RNA binding (0.30)	intracellular (0.90)	SOK2 SKN7 YAP6 CIN5 ROX1 PHD1 NRG1 (0.29)
Score:		0.51	0.09	0.80	0.095
P-value:		3.549E-03 (rRNA processing)	3.645E-01 (RNA binding)	6.237E-02 (nucleolus)	2.918E-01 (SOK2)

mRRPE(1) AND PAC(1) => SimExpr(YDR399W) OR SimExpr(other) : 75 10

SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YDR399W) OR SimExpr(other) : 9 3

mRRPE(1) AND PAC(1) AND MCM1'(1) => SimExpr(YDR399W) OR SimExpr(other) : 13 4

mRRPE(1) AND MCM1'(1) AND ALPHA2'(1) => SimExpr(YDR399W) OR SimExpr(other) : 5 1

EXPR: (0.110) mRRPE (P < 0.014) MCM1' (P < 0.000) ALPHA2' (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YJR025C	BNA1	nicotinamide adenine dinucleotide biosynthesis -> coenzymes and prosthetic group metabolism, biosynthesis, water-soluble vitamin metabolism, vitamin metabolism	3-hydroxyanthranilate 3\,4-dioxygenase activity -> 3-hydroxyanthranilate 3\,4-dioxygenase activity	cytoplasm -> cytoplasm	GCN4, SUM1, SWI6
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> hypoxanthine phosphoribosyltransferase activity
YBL092W	RPL32	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> ribose-5-phosphate isomerase activity		FHL1, FKH2, RAP1
YGR001C	NO SYMBOL
YDR119W	NO SYMBOL				MSS11, SIG1, SKO1
Main:		biosynthesis (0.75)	3-hydroxyanthranilate 3\,4-dioxygenase activity (0.25)	cytoplasm (1.00)	RAP1 FHL1 (0.50)
Score:		0.67	0.00	1.00	0.167
P-value:		1.824E-02 (pyridine nucleotide metabolism)	2.099E+00 (enzyme activity)	4.698E+00 (cytoplasm)	1.060E-01 (FHL1)

mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YDR399W) OR SimExpr(other) : 20 2

mRRPE(1) AND SWI5(1) AND PAC(1) => SimExpr(YDR399W) OR SimExpr(other) : 14 3

SWI5(1) AND MCM1'(1) AND ALPHA2'(1) => SimExpr(YDR399W) : 6

EXPR: (0.123) SWI5 (P < 0.000) MCM1' (P < 0.000) ALPHA2' (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YJR025C	BNA1	nicotinamide adenine dinucleotide biosynthesis -> coenzymes and prosthetic group metabolism, biosynthesis, water-soluble vitamin metabolism, vitamin metabolism	3-hydroxyanthranilate 3\,4-dioxygenase activity -> 3-hydroxyanthranilate 3\,4-dioxygenase activity	cytoplasm -> cytoplasm	GCN4, SUM1, SWI6
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> hypoxanthine phosphoribosyltransferase activity
YOR109W	INP53	endocytosis, dephosphorylation, cell wall organization and biogenesis -> transport, phosphorus metabolism, cell organization and biogenesis	inositol-1\,4\,5-trisphosphate 5-phosphatase activity -> inositol-1\,4\,5-trisphosphate 5-phosphatase activity	actin cortical patch (sensu Saccharomyces), membrane fraction -> cell cortex, membrane fraction, cytoplasm	SIP4
YPL028W	ERG10	ergosterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	acetyl-CoA C-acetyltransferase activity -> acetyl-CoA C-acetyltransferase activity	cytosol -> cytoplasm	MTH1
YGL034C	NO SYMBOL
YGR001C	NO SYMBOL
Main:		biosynthesis (0.75)	3-hydroxyanthranilate 3\,4-dioxygenase activity (0.25)	cytoplasm (1.00)	MTH1 (0.33)
Score:		0.50	0.00	1.00	0.000
P-value:		5.570E-01 (biosynthesis)	1.001E+00 (transferase activity)	3.832E+00 (cytoplasm)	5.012E-01 (SIP4)

mRRPE(1) AND SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YDR399W) : 6

ALPHA1(1) AND mRRPE(1) AND ALPHA2'(1) => SimExpr(YLR355C) : 6

EXPR: (0.109) mRRPE (P < 0.010) ALPHA2' (P < 0.000) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YPR117W	NO SYMBOL				IME4, MBP1, SFP1
YGR094W	VAS1	valyl-tRNA aminoacylation -> biosynthesis, protein metabolism	valine-tRNA ligase activity -> valine-tRNA ligase activity	cytoplasm, mitochondrion -> cytoplasm	SIG1
YLR355C	ILV5	branched chain family amino acid biosynthesis, mitochondrial genome maintenance -> amine metabolism, cell organization and biogenesis, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	ketol-acid reductoisomerase activity -> ketol-acid reductoisomerase activity	mitochondrion -> cytoplasm	GCN4, MET4
YBL092W	RPL32	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR095C	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> ribose-5-phosphate isomerase activity		FHL1, FKH2, RAP1
YGR001C	NO SYMBOL
Main:		biosynthesis (0.75)	structural constituent of ribosome (0.25)	cytoplasm (1.00)	RAP1 FHL1 (0.40)
Score:		0.50	0.00	1.00	0.100
P-value:		8.913E-01 (biosynthesis)	2.099E+00 (enzyme activity)	1.070E+00 (mitochondrion)	1.060E-01 (FHL1)

LYS14(1) AND PAC(1) => SimExpr(YBR034C) OR SimExpr(other) : 14 5

ALPHA1(1) AND PAC(1) => SimExpr(YBR034C) OR SimExpr(other) : 44 15

EXPR: (0.175) PAC (P < 0.487) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YPL266W	DIM1	rRNA modification, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA (adenine-N6\,N6-)-dimethyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleolus -> intracellular	ARG81, STP2
YHR088W	RPF1	processing of 27S pre-rRNA, ribosomal large subunit assembly and maintenance -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	rRNA primary transcript binding -> nucleic acid binding	nucleolus -> intracellular	FKH1
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> intracellular, membrane
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YNL207W	RIO2	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	nucleocytoplasmic transporter activity, protein kinase activity -> nucleocytoplasmic transporter activity, transferase activity\, transferring phosphorus-containing groups	cytosol, nucleus -> intracellular	ABF1, MAL33
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	HIR2, USV1
\|YOR284W\|	HUA2				RFX1, YAP6
YMR131C	RRB1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> intracellular	FZF1, MATa1, RGT1
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YJR070C	NO SYMBOL				GAT3, YAP5
\|YBL066C\|	SEF1
YFR034C	PHO4	phosphate metabolism, cellular response to phosphate starvation -> phosphorus metabolism, response to extracellular stimulus, response to biotic stimulus	transcription factor activity -> nucleic acid binding	nucleus, cytoplasm -> intracellular
\|YML005W\|	NO SYMBOL				USV1
YBR034C	HMT1	peptidyl-arginine modification, mRNA-nucleus export -> protein metabolism, transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein-arginine N-methyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleus -> intracellular
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	USV1
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> intracellular	CUP9, MET4, RAP1
YMR239C	RNT1	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nucleolus -> intracellular
YLR073C	NO SYMBOL
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> intracellular	STB1
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YNL299W	TRF5	sister chromatid cohesion -> cell proliferation	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> intracellular
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell organization and biogenesis	mRNA binding -> nucleic acid binding	nucleus -> intracellular	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> intracellular
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> intracellular, membrane	SWI5
YNL163C	RIA1	ribosome biogenesis -> cell organization and biogenesis	translation elongation factor activity -> nucleic acid binding	cytoplasm -> intracellular	FHL1, RAP1, YAP5
YBR292C	NO SYMBOL				STE12, ZMS1
YCR072C	NO SYMBOL				YFL044C
YDR527W	NO SYMBOL				ABF1, SKN7
\|YKL056C\|	NO SYMBOL
YMR185W	NO SYMBOL
YIR026C	YVH1	meiosis, sporulation (sensu Saccharomyces) -> cell proliferation, sporulation	protein tyrosine phosphatase activity -> hydrolase activity\, acting on ester bonds		DOT6, SUM1
YML108W	NO SYMBOL
YFL007W	BLM3			membrane -> membrane
YKL078W	DHR2	ribosome biogenesis -> cell organization and biogenesis	RNA helicase activity -> nucleic acid binding	nucleolus -> intracellular	ABF1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
\|YCL049C\|	NO SYMBOL				SUM1
YBR069C	TAT1	amino acid transport -> transport	amino acid transporter activity -> carboxylic acid transporter activity	plasma membrane -> membrane	CIN5, DAL81, PHD1, SWI4
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	ABF1, HIR1, RCS1
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> membrane	CIN5, PDR1, YAP6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> intracellular, membrane	RAP1
YJL069C	UTP18				ABF1
\|YGR126W\|	NO SYMBOL				CHA4, GTS1, SWI6
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> nucleic acid binding	nucleolus, nucleolus organizer complex -> intracellular	FHL1, RAP1
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
\|YKL145W\|	RPT1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	ATPase activity, endopeptidase activity -> purine nucleotide binding, peptidase activity, hydrolase activity\, acting on acid anhydrides	proteasome regulatory particle (sensu Eukarya) -> intracellular	REB1
\|YMR302C\|	PRP12	mitochondrial genome maintenance, rRNA processing -> cell organization and biogenesis, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	exonuclease activity -> hydrolase activity\, acting on ester bonds	mitochondrial inner membrane -> intracellular, membrane
YGL189C	RPS26A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
YHR196W	UTP9	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, nucleolus, nucleus -> intracellular
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		cell organization and biogenesis (0.57)	nucleic acid binding (0.52)	intracellular (0.91)	RAP1 (0.20)
Score:		0.44	0.28	0.86	0.095
P-value:		3.718E-12 (ribosome biogenesis)	1.707E-03 (rRNA binding)	2.391E-10 (nucleolus)	1.000E+00

ALPHA1(1) AND PAC(1) AND SCB(1) => SimExpr(YBR034C) OR SimExpr(other) : 18 3

EXPR: (0.125) PAC (P < 0.009) SCB (P < 0.000) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YHR088W	RPF1	processing of 27S pre-rRNA, ribosomal large subunit assembly and maintenance -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	rRNA primary transcript binding -> nucleic acid binding	nucleolus -> intracellular	FKH1
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> pore complex, intracellular, endomembrane system
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YMR131C	RRB1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> intracellular	FZF1, MATa1, RGT1
YJR070C	NO SYMBOL				GAT3, YAP5
YFR034C	PHO4	phosphate metabolism, cellular response to phosphate starvation -> phosphorus metabolism, response to extracellular stimulus, response to biotic stimulus	transcription factor activity -> nucleic acid binding	nucleus, cytoplasm -> intracellular
YBR034C	HMT1	peptidyl-arginine modification, mRNA-nucleus export -> protein metabolism, transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein-arginine N-methyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleus -> intracellular
YMR239C	RNT1	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nucleolus -> intracellular
YLR073C	NO SYMBOL
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> intracellular	STB1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YDR527W	NO SYMBOL				ABF1, SKN7
\|YKL056C\|	NO SYMBOL
YIR026C	YVH1	meiosis, sporulation (sensu Saccharomyces) -> cell proliferation, sporulation	protein tyrosine phosphatase activity -> hydrolase activity\, acting on ester bonds		DOT6, SUM1
YML108W	NO SYMBOL
YJL069C	UTP18				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		cell organization and biogenesis (0.54)	nucleic acid binding (0.73)	intracellular (1.00)	ABF1 (0.25)
Score:		0.45	0.53	1.00	0.076
P-value:		7.448E-03 (ribosome biogenesis and assembly)	4.778E-03 (rRNA binding)	8.316E-03 (nucleolus)	1.000E+00

LYS14(1) AND PAC(1) AND SCB(1) => SimExpr(YBR034C) OR SimExpr(other) : 7 2

EXPR: (0.136) LYS14 (P < 0.000) PAC (P < 0.168) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YJR070C	NO SYMBOL				GAT3, YAP5
YBR034C	HMT1	peptidyl-arginine modification, mRNA-nucleus export -> protein metabolism, transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein-arginine N-methyltransferase activity -> methyltransferase activity	nucleus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YGR191W\|	HIP1	manganese ion transport, histidine transport -> transport, organic acid transport	histidine transporter activity -> amino acid transporter activity	plasma membrane -> plasma membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
YNL141W	AAH1	adenine catabolism -> aromatic compound metabolism, catabolism, heterocycle metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	adenine deaminase activity -> hydrolase activity\, acting on carbon-nitrogen (but not peptide) bonds\, in cyclic amidines		YFL044C
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOL141W	PPM2		C-terminal protein carboxyl methyltransferase activity -> methyltransferase activity		ARG81, SRD1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.60)	methyltransferase activity (0.33)	nucleus (0.75)	MBP1 SRD1 (0.29)
Score:		0.60	0.07	0.50	0.095
P-value:		1.647E+00 (catabolism)	3.829E-02 (methyltransferase activity)	2.788E-01 (nucleolus)	1.220E-01 (SRD1)

CSRE(1) AND RAP1(1) => SimExpr(YDR450W) OR SimExpr(other) : 12 2

RAP1(1) AND MCM1'(1) => SimExpr(YDR450W) OR SimExpr(other) : 17 6

RAP1(1) AND SWI5(1) => SimExpr(YDR450W) OR SimExpr(other) : 21 7

CSRE(1) AND RAP1(1) AND SWI5(1) => SimExpr(YDR450W) : 6

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YDR450W) : 7

mRRPE(1) AND PAC(1) => SimExpr(YGR159C) OR SimExpr(other) : 79 6

mRRPE(1) AND PAC(1) AND MCM1'(1) => SimExpr(YGR159C) OR SimExpr(other) : 14 3

CSRE(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGR159C) : 5

EXPR: (0.090) mRRPE (P < 0.010) PAC (P < 0.084) CSRE (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YGR159C	NSR1	ribosomal small subunit assembly and maintenance, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	single-stranded DNA binding, RNA binding -> single-stranded DNA binding, RNA binding	nucleolus, nucleus -> nucleus
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> hypoxanthine phosphoribosyltransferase activity
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> DNA-directed RNA polymerase activity	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.80)	single-stranded DNA binding (0.33)	nucleus (1.00)	ABF1 (0.50)
Score:		0.80	0.00	1.00	0.000
P-value:		6.644E-03 (transcription from Pol I promoter)	7.431E-01 (transferase activity)	3.366E-03 (nucleolus)	2.450E-01 (SIG1)

CSRE(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGR245C) : 5

RAP1(1) => SimExpr(YDL043C) OR SimExpr(other) : 53 25

EXPR: (0.198) RAP1 (P < 0.657)

ORF	SYMBOL	P	F	C	TF
YNL201C	PSY2
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YOR312C	RPL20B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, FKH2, GAT3, RAP1
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> purine nucleotide binding, primary active transporter activity, cation transporter activity, hydrolase activity\, acting on acid anhydrides	membrane -> membrane	GAL4, SMP1
YJR123W	RPS5	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GRF10(Pho2), HSF1, MSN4, YAP1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
\|YBR098W\|	MMS4	DNA repair, meiotic recombination -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	transcription co-activator activity, endonuclease activity -> protein binding, hydrolase activity\, acting on ester bonds	nucleus -> nucleus
\|YBL022C\|	PIM1	proteolysis and peptidolysis, response to heat -> catabolism, response to abiotic stimulus, protein metabolism	ATP-dependent peptidase activity -> peptidase activity	mitochondrial matrix -> cytoplasm	RAP1
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> transferase activity\, transferring alkyl or aryl (other than methyl) groups
\|YBL093C\|	ROX3	transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase II transcription mediator activity -> general RNA polymerase II transcription factor activity	mediator complex, nucleus -> nucleus	FHL1, RAP1
YPL090C	RPS6A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, INO4, RAP1, YAP5
YJR145C	RPS4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YOL121C	RPS19A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	AZF1, FHL1, GCR1, GCR2, HAL9, MET31, MOT3, PDR1, RAP1, ROX1, RPH1, SMP1, YAP6, ZAP1
YLR061W	RPL22A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	BAS1, FHL1, HIR1, PDR1, RAP1, RCS1, RME1, ZAP1
YMR231W	PEP5	nonselective vesicle docking, homotypic vacuole fusion (non-autophagic), Golgi to endosome transport, late endosome to vacuole transport -> cell organization and biogenesis, transport, vesicle-mediated transport		vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole	ARG81, DOT6, HAL9, HAP2, MCM1, YAP1
YLR003C	NO SYMBOL				ABF1
\|YPL162C\|	NO SYMBOL
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
\|YHR122W\|	NO SYMBOL				GCN4, RAP1
\|YMR224C\|	MRE11	DNA repair, double-strand break repair via nonhomologous end-joining, meiotic DNA double-strand break formation, meiotic DNA double-strand break processing, double-strand break repair via break-induced replication -> DNA metabolism, cell proliferation, catabolism	endonuclease activity, 3'-5' exonuclease activity, protein binding -> hydrolase activity\, acting on ester bonds, protein binding	nucleus -> nucleus	RAP1
\|YNL101W\|	AVT4	neutral amino acid transport -> transport	neutral amino acid transporter activity -> carboxylic acid transporter activity	vacuole -> cytoplasm	HAP3, INO4, IXR1, PHD1, RAP1
YHL033C	RPL8A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDL130W	RPP1B	protein biosynthesis, translational elongation -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAL4, RAP1, RFX1
YDR418W	RPL12B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, SMP1
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOL120C	RPL18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MAL13, RAP1, YAP5
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
\|YHL038C\|	CBP2	RNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pre-mRNA splicing factor activity -> RNA binding	mitochondrion -> cytoplasm	RAP1
YOR096W	RPS7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, FKH2, RAP1
\|YJR138W\|	IML1				ABF1, DOT6, GCR2, MET31, REB1
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> small GTPase regulatory/interacting protein activity	plasma membrane -> membrane	DIG1, FHL1, RAP1, STE12
\|YGR254W\|	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> carbon-oxygen lyase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
YLR208W	SEC13	nonselective vesicle assembly, ER to Golgi transport, ER-associated protein catabolism -> macromolecule catabolism, transport, protein metabolism		cytoplasm, COPII vesicle coat, nuclear pore, extrinsic to plasma membrane -> nucleus, cytoplasm, membrane coat, membrane
YNL288W	CAF40	regulation of transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		CCR4-NOT complex -> nucleus	RAP1
\|YGL115W\|	SNF4	regulation of transcription from Pol II promoter, peroxisome organization and biogenesis -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein kinase activator activity -> kinase activator activity	plasma membrane, nucleus, cytoplasm -> membrane, nucleus, cytoplasm	BAS1, CAD1, MAC1, NRG1, PDR1, RAP1, SMP1, YAP5
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> intramolecular transferase activity	cytosol -> cytoplasm	GCR1, GCR2, HSF1, RAP1
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MIG1
\|YPR161C\|	SGV1	transcription, protein amino acid phosphorylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, phosphorus metabolism, protein metabolism	cyclin-dependent protein kinase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> nucleus	RAP1
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
\|YKL180W\|	RPL17A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YMR014W	BUD22	bud site selection -> cell proliferation, cell organization and biogenesis		nucleus -> nucleus	CUP9, HAL9, HIR2, LEU3, NDD1, RLM1, ROX1, SMP1, YAP6
\|YJL217W\|	NO SYMBOL				CIN5, MAC1, PHD1, SWI5, YAP6
YGL147C	RPL9A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MBP1, RAP1, SWI4
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
YOR213C	SAS5	chromatin silencing at telomere -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	acetyltransferase activity -> transferase activity\, transferring acyl groups	nuclear chromosome\, telomeric region, nuclear chromatin -> chromosome, nuclear chromosome	GRF10(Pho2), SUM1
\|YMR193W\|	MRPL24	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	mitochondrial large ribosomal subunit -> cytoplasm, ribonucleoprotein complex	ARO80, HAP4, HAP5, LEU3, MET31, RTG1, RTG3, STE12, STP1, UGA3
\|YGR260W\|	TNA1	nicotinamide mononucleotide transport -> transport	nicotinamide mononucleotide permease activity -> nicotinamide mononucleotide transporter activity	integral to plasma membrane -> membrane	HIR2, SUM1
\|YOL160W\|	NO SYMBOL				ARO80, NRG1, PHO4, RLM1, SIP4, SWI6
YDR450W	RPS18A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YIL018W	RPL2B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, SWI5, YAP5
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YBR181C	RPS6B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, MAL13, RAP1, RGM1
\|YGL196W\|	NO SYMBOL
YKR057W	RPS21A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ABF1, FHL1
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
\|YKL072W\|	STB6				ARG81, ARO80, BAS1, CIN5, GCN4, GLN3, HAP3, MCM1, PHD1, REB1, RLM1, YJL206C, ZAP1
YBR118W	TEF2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides	integral to membrane -> membrane
YNL311C	NO SYMBOL				GCN4, RAP1
YGL030W	RPL30	protein biosynthesis, rRNA processing, mRNA splicing, regulation of translation -> cell organization and biogenesis, biosynthesis, transcription, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, SFP1
YNL302C	RPS19B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
\|YPL189W\|	GUP2			membrane -> membrane	RFX1
YKL006W	RPL14A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
\|YGR257C\|	NO SYMBOL
\|YKL033W\|	NO SYMBOL				RPH1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YPL180W	BIT89	glycerol metabolism -> alcohol metabolism, glycerol ether metabolism, lipid metabolism			REB1, RGT1, SIG1
YGL076C	RPL7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
\|YJR139C\|	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> oxidoreductase activity\, acting on CH-OH group of donors		HMS1, RAP1
YNL096C	RPS7B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, SFP1
\|YMR013C\|	SEC59	protein-ER targeting, protein amino acid glycosylation -> cell organization and biogenesis, biosynthesis, protein modification, protein metabolism, transport	dolichol kinase activity -> transferase activity\, transferring phosphorus-containing groups	membrane -> membrane	FHL1, NDD1, RAP1, RLM1, RME1
YLR441C	RPS1A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.65)	structural constituent of ribosome (0.57)	cytoplasm (0.73)	RAP1 (0.65)
Score:		0.54	0.33	0.62	0.540
P-value:		8.942E-15 (protein biosynthesis)	8.714E-21 (structural constituent of ribosome)	2.371E-24 (cytosolic ribosome (sensu Eukarya))	1.955E-37 (FHL1)

CSRE(1) AND RAP1(1) => SimExpr(YDL043C) OR SimExpr(other) : 12 2

RAP1(1) AND SFF(1) => SimExpr(YDL043C) OR SimExpr(other) : 35 13

EXPR: (0.177) SFF (P < 0.000) RAP1 (P < 0.104)

ORF	SYMBOL	P	F	C	TF
YNL201C	PSY2
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YOR312C	RPL20B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, FKH2, GAT3, RAP1
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> purine nucleotide binding, primary active transporter activity, cation transporter activity, hydrolase activity\, acting on acid anhydrides	membrane -> membrane	GAL4, SMP1
YJR123W	RPS5	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GRF10(Pho2), HSF1, MSN4, YAP1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
\|YBR098W\|	MMS4	DNA repair, meiotic recombination -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	transcription co-activator activity, endonuclease activity -> protein binding, hydrolase activity\, acting on ester bonds	nucleus -> nucleus
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> transferase activity\, transferring alkyl or aryl (other than methyl) groups
\|YBL093C\|	ROX3	transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase II transcription mediator activity -> general RNA polymerase II transcription factor activity	mediator complex, nucleus -> nucleus	FHL1, RAP1
YJR145C	RPS4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YOL121C	RPS19A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	AZF1, FHL1, GCR1, GCR2, HAL9, MET31, MOT3, PDR1, RAP1, ROX1, RPH1, SMP1, YAP6, ZAP1
YLR061W	RPL22A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	BAS1, FHL1, HIR1, PDR1, RAP1, RCS1, RME1, ZAP1
YMR231W	PEP5	nonselective vesicle docking, homotypic vacuole fusion (non-autophagic), Golgi to endosome transport, late endosome to vacuole transport -> cell organization and biogenesis, transport, vesicle-mediated transport		vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole	ARG81, DOT6, HAL9, HAP2, MCM1, YAP1
YLR003C	NO SYMBOL				ABF1
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
\|YHR122W\|	NO SYMBOL				GCN4, RAP1
\|YMR224C\|	MRE11	DNA repair, double-strand break repair via nonhomologous end-joining, meiotic DNA double-strand break formation, meiotic DNA double-strand break processing, double-strand break repair via break-induced replication -> DNA metabolism, cell proliferation, catabolism	endonuclease activity, 3'-5' exonuclease activity, protein binding -> hydrolase activity\, acting on ester bonds, protein binding	nucleus -> nucleus	RAP1
YHL033C	RPL8A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDR418W	RPL12B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, SMP1
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YOR096W	RPS7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, FKH2, RAP1
\|YJR138W\|	IML1				ABF1, DOT6, GCR2, MET31, REB1
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> small GTPase regulatory/interacting protein activity	plasma membrane -> membrane	DIG1, FHL1, RAP1, STE12
\|YGR254W\|	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> carbon-oxygen lyase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
YLR208W	SEC13	nonselective vesicle assembly, ER to Golgi transport, ER-associated protein catabolism -> macromolecule catabolism, transport, protein metabolism		cytoplasm, COPII vesicle coat, nuclear pore, extrinsic to plasma membrane -> nucleus, cytoplasm, membrane coat, membrane
\|YGL115W\|	SNF4	regulation of transcription from Pol II promoter, peroxisome organization and biogenesis -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein kinase activator activity -> kinase activator activity	plasma membrane, nucleus, cytoplasm -> membrane, nucleus, cytoplasm	BAS1, CAD1, MAC1, NRG1, PDR1, RAP1, SMP1, YAP5
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> intramolecular transferase activity	cytosol -> cytoplasm	GCR1, GCR2, HSF1, RAP1
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MIG1
\|YKL180W\|	RPL17A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
\|YJL217W\|	NO SYMBOL				CIN5, MAC1, PHD1, SWI5, YAP6
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
\|YOL160W\|	NO SYMBOL				ARO80, NRG1, PHO4, RLM1, SIP4, SWI6
YKR057W	RPS21A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ABF1, FHL1
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides	integral to membrane -> membrane
YKL006W	RPL14A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
\|YGR257C\|	NO SYMBOL
\|YKL033W\|	NO SYMBOL				RPH1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YPL180W	BIT89	glycerol metabolism -> alcohol metabolism, glycerol ether metabolism, lipid metabolism			REB1, RGT1, SIG1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
\|YJR139C\|	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> oxidoreductase activity\, acting on CH-OH group of donors		HMS1, RAP1
YLR441C	RPS1A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.66)	structural constituent of ribosome (0.57)	cytoplasm (0.74)	RAP1 (0.60)
Score:		0.51	0.34	0.68	0.515
P-value:		3.130E-07 (protein biosynthesis)	6.585E-12 (structural constituent of ribosome)	1.082E-14 (cytosolic ribosome (sensu Eukarya))	2.628E-22 (FHL1)

RAP1(1) AND ALPHA1'(1) => SimExpr(YDL043C) OR SimExpr(other) : 30 11

RAP1(1) AND ALPHA2(1) => SimExpr(YDL043C) OR SimExpr(other) : 9 3

EXPR: (0.180) ALPHA2 (P < 0.000) RAP1 (P < 0.312)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
\|YBL022C\|	PIM1	proteolysis and peptidolysis, response to heat -> catabolism, response to abiotic stimulus, protein metabolism	ATP-dependent peptidase activity -> ATP-dependent peptidase activity	mitochondrial matrix -> cytoplasm	RAP1
\|YPL162C\|	NO SYMBOL
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YBR181C	RPS6B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, MAL13, RAP1, RGM1
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to membrane -> integral to membrane
YNL311C	NO SYMBOL				GCN4, RAP1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
\|YJR139C\|	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> homoserine dehydrogenase activity		HMS1, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.70)	structural constituent of ribosome (0.50)	cytoplasm (0.78)	RAP1 (0.60)
Score:		0.60	0.22	0.75	0.422
P-value:		8.990E-03 (protein biosynthesis)	3.165E-03 (structural constituent of ribosome)	1.084E-03 (ribonucleoprotein complex)	6.889E-04 (RAP1)

SFF(1) AND mRRPE(1) AND zap1(1) => SimExpr(YNL189W) OR SimExpr(other) : 5 2

EXPR: (0.212) SFF (P < 0.033) mRRPE (P < 0.349) zap1 (P < 0.041)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
YPR117W	NO SYMBOL				IME4, MBP1, SFP1
YKR079C	NO SYMBOL				BAS1
YLR130C	ZRT2	low-affinity zinc ion transport -> transport	low-affinity zinc ion transporter activity -> low-affinity zinc ion transporter activity	plasma membrane -> plasma membrane	ZAP1
YMR130W	NO SYMBOL
\|YCR044C\|	PER1	manganese ion homeostasis, response to unfolded protein -> response to biotic stimulus, cell homeostasis		vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole	YFL044C
\|YJR122W\|	CAF17				YAP1
Main:		transport (0.67)	low-affinity zinc ion transporter activity (0.50)	cytoplasm (0.67)	ABF1 (0.17)
Score:		0.33	0.00	0.33	0.000
P-value:		2.699E+00 (transport)	6.419E-01 (transporter activity)	3.145E+00 (membrane)	5.564E-01 (ZAP1)

SFF'(1) AND mRRPE(1) AND zap1(1) => SimExpr(YNL189W) OR SimExpr(other) : 7 1

EXPR: (0.159) SFF' (P < 0.002) mRRPE (P < 0.051) zap1 (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
YPR117W	NO SYMBOL				IME4, MBP1, SFP1
YKR079C	NO SYMBOL				BAS1
YKR059W	TIF1	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation initiation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	ABF1, FKH1, FKH2
YLR130C	ZRT2	low-affinity zinc ion transport -> transport	low-affinity zinc ion transporter activity -> low-affinity zinc ion transporter activity	plasma membrane -> plasma membrane	ZAP1
YMR130W	NO SYMBOL
YLR355C	ILV5	branched chain family amino acid biosynthesis, mitochondrial genome maintenance -> amine metabolism, cell organization and biogenesis, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	ketol-acid reductoisomerase activity -> ketol-acid reductoisomerase activity	mitochondrion -> cytoplasm	GCN4, MET4
\|YJR122W\|	CAF17				YAP1
Main:		biosynthesis (0.50)	low-affinity zinc ion transporter activity (0.25)	cytoplasm (0.75)	ABF1 (0.29)
Score:		0.33	0.00	0.50	0.048
P-value:		4.199E+00 (transport)	1.052E+00 (transporter activity)	4.619E+00 (cytoplasm)	8.442E-01 (ZAP1)

RAP1(1) AND ATRepeat(1) => SimExpr(YKL152C) OR SimExpr(other) : 5 2

RAP1(1) AND STRE(1) => SimExpr(YGR214W) : 5

CSRE(1) AND RAP1(1) AND SWI5(1) => SimExpr(YOR213C) : 6

RAP1(1) AND ALPHA1'(1) AND SFF(1) => SimExpr(YOR096W) OR SimExpr(other) : 19 4

EXPR: (0.152) ALPHA1' (P < 0.000) SFF (P < 0.000) RAP1 (P < 0.074)

ORF	SYMBOL	P	F	C	TF
YNL201C	PSY2
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> purine nucleotide binding, primary active transporter activity, cation transporter activity, hydrolase activity\, acting on acid anhydrides	membrane -> membrane	GAL4, SMP1
YJR123W	RPS5	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GRF10(Pho2), HSF1, MSN4, YAP1
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> transferase activity\, transferring alkyl or aryl (other than methyl) groups
YOL121C	RPS19A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	AZF1, FHL1, GCR1, GCR2, HAL9, MET31, MOT3, PDR1, RAP1, ROX1, RPH1, SMP1, YAP6, ZAP1
YLR061W	RPL22A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	BAS1, FHL1, HIR1, PDR1, RAP1, RCS1, RME1, ZAP1
YMR231W	PEP5	nonselective vesicle docking, homotypic vacuole fusion (non-autophagic), Golgi to endosome transport, late endosome to vacuole transport -> cell organization and biogenesis, transport, vesicle-mediated transport		vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole	ARG81, DOT6, HAL9, HAP2, MCM1, YAP1
YLR003C	NO SYMBOL				ABF1
YHL033C	RPL8A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDR418W	RPL12B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, SMP1
YGR214W	RPS0A	protein biosynthesis, ribosomal small subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YOR096W	RPS7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, FKH2, RAP1
\|YJR138W\|	IML1				ABF1, DOT6, GCR2, MET31, REB1
\|YGR254W\|	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> carbon-oxygen lyase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
\|YKL180W\|	RPL17A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya), cytoplasm -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
\|YKL033W\|	NO SYMBOL				RPH1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
Main:		biosynthesis (0.78)	structural constituent of ribosome (0.71)	cytoplasm (0.82)	FHL1 (0.62)
Score:		0.65	0.52	0.85	0.457
P-value:		2.162E-05 (protein biosynthesis)	6.884E-09 (structural constituent of ribosome)	4.448E-10 (cytosolic ribosome (sensu Eukarya))	1.796E-13 (FHL1)

CSRE(1) AND RAP1(1) => SimExpr(YNL069C) OR SimExpr(other) : 12 2

RAP1(1) AND MCM1'(1) => SimExpr(YNL069C) OR SimExpr(other) : 17 6

RAP1(1) AND SWI5(1) => SimExpr(YNL069C) OR SimExpr(other) : 21 7

CSRE(1) AND RAP1(1) AND SWI5(1) => SimExpr(YNL069C) : 6

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YNL069C) : 7

RAP1(1) AND SCB(1) => SimExpr(YLR344W) OR SimExpr(other) : 10 4

EXPR: (0.138) SCB (P < 0.000) RAP1 (P < 0.124)

ORF	SYMBOL	P	F	C	TF
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YHL033C	RPL8A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YLR208W	SEC13	nonselective vesicle assembly, ER to Golgi transport, ER-associated protein catabolism -> macromolecule catabolism, transport, protein metabolism		cytoplasm, COPII vesicle coat, nuclear pore, extrinsic to plasma membrane -> nucleus, cytoplasm, membrane coat, membrane
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MIG1
\|YPR080W\|	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
\|YGR260W\|	TNA1	nicotinamide mononucleotide transport -> transport	nicotinamide mononucleotide permease activity -> nicotinamide mononucleotide permease activity	integral to plasma membrane -> membrane	HIR2, SUM1
\|YOL160W\|	NO SYMBOL				ARO80, NRG1, PHO4, RLM1, SIP4, SWI6
YBR118W	TEF2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
\|YPL189W\|	GUP2			membrane -> membrane	RFX1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		protein metabolism (0.91)	structural constituent of ribosome (0.60)	cytoplasm (0.83)	FHL1 (0.62)
Score:		0.84	0.40	0.73	0.359
P-value:		4.710E-05 (protein biosynthesis)	2.820E-04 (translation elongation factor activity)	1.878E-06 (ribosome)	2.825E-08 (FHL1)

RAP1(1) AND MCM1'(1) => SimExpr(YLR344W) OR SimExpr(other) : 17 6

RAP1(1) AND ALPHA1'(1) => SimExpr(YLR344W) OR SimExpr(other) : 29 12

RAP1(1) AND SWI5(1) => SimExpr(YLR344W) OR SimExpr(other) : 20 8

CSRE(1) AND RAP1(1) => SimExpr(YLR344W) OR SimExpr(other) : 12 2

CSRE(1) AND RAP1(1) AND SWI5(1) => SimExpr(YLR344W) : 6

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YLR344W) : 7

RAP1(1) AND ALPHA1'(1) AND SFF'(1) AND SCB(1) => SimExpr(YLR344W) : 6

EXPR: (0.093) ALPHA1' (P < 0.000) SFF' (P < 0.000) SCB (P < 0.000) RAP1 (P < 0.027)

ORF	SYMBOL	P	F	C	TF
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> protein biosynthesis, ribosome biogenesis and assembly	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YHL033C	RPL8A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1
YLR344W	RPL26A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YBR118W	TEF2	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	FHL1, RAP1
Main:		protein biosynthesis (1.00)	structural constituent of ribosome (0.80)	ribosome (1.00)	FHL1 (0.83)
Score:		1.00	0.60	1.00	0.667
P-value:		6.996E-04 (protein biosynthesis)	1.164E-03 (structural constituent of ribosome)	1.795E-04 (ribosome)	1.348E-06 (FHL1)

RAP1(1) AND ALPHA1'(1) AND SFF(1) AND SCB(1) => SimExpr(YLR344W) : 5

EXPR: (0.077) ALPHA1' (P < 0.000) SFF (P < 0.000) SCB (P < 0.000) RAP1 (P < 0.010)

ORF	SYMBOL	P	F	C	TF
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> protein biosynthesis, ribosomal large subunit assembly and maintenance	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YHL033C	RPL8A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1
YLR344W	RPL26A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), large ribosomal subunit	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosolic ribosome (sensu Eukarya), eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, small ribosomal subunit	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
Main:		protein biosynthesis (1.00)	structural constituent of ribosome (1.00)	cytosolic ribosome (sensu Eukarya) (1.00)	FHL1 (0.80)
Score:		1.00	1.00	1.00	0.600
P-value:		5.370E-03 (protein biosynthesis)	4.066E-04 (structural constituent of ribosome)	2.030E-04 (cytosolic ribosome (sensu Eukarya))	4.023E-05 (FHL1)

RPN4(1) AND MCM1'(1) AND SCB(1) => SimExpr(YJL045W) : 5

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND SWI5(1) AND SCB(1) => SimExpr(YKL209C) OR SimExpr(other) : 6 1

EXPR: (0.184) ALPHA2 (P < 0.000) ALPHA1' (P < 0.000) SWI5 (P < 0.002) SCB (P < 0.003) ALPHA1 (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YLR272C	YCS4	mitotic chromosome condensation -> cell proliferation, cell cycle		nuclear condensin complex -> nuclear condensin complex
YHR046C	INM1	myo-inositol metabolism -> alcohol metabolism, carbohydrate metabolism	myo-inositol-1(or 4)-monophosphatase activity -> myo-inositol-1(or 4)-monophosphatase activity
YPR195C	NO SYMBOL				FKH1, FKH2, HIR1, HIR2, INO4, RLM1
YKL209C	STE6	peptide pheromone export -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> integral to plasma membrane, shmoo tip	MCM1, STE12
\|YOR111W\|	NO SYMBOL				UGA3
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> microsome	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR001C	NO SYMBOL
Main:		alcohol metabolism (0.50)	electron transporter activity (0.33)	integral to plasma membrane (0.33)	GCR2 (0.25)
Score:		0.17	0.00	0.00	0.000
P-value:		2.701E-01 (alcohol metabolism)	1.070E+00 (transporter activity)	3.000E+00 (cell)	1.000E+00

SFF'(1) AND mRRPE(1) AND zap1(1) => SimExpr(YLR130C) OR SimExpr(other) : 6 2

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND MCM1'(1) AND SCB(1) => SimExpr(YLR084C) OR SimExpr(other) : 6 2

EXPR: (0.177) ALPHA2 (P < 0.009) ALPHA1' (P < 0.006) MCM1' (P < 0.001) SCB (P < 0.024) ALPHA1 (P < 0.004)

ORF	SYMBOL	P	F	C	TF
YLR084C	RAX2	bud site selection -> establishment of cell polarity (sensu Saccharomyces), cytokinesis\, site selection		bud neck, bud scar, membrane -> site of polarized growth (sensu Fungi), cell wall, membrane	FKH2, MCM1, NDD1, SKN7, SWI4
\|YCL047C\|	NO SYMBOL				CIN5
YHR046C	INM1	myo-inositol metabolism -> myo-inositol metabolism	myo-inositol-1(or 4)-monophosphatase activity -> myo-inositol-1(or 4)-monophosphatase activity
YNL271C	BNI1	mitotic spindle orientation, response to osmotic stress, actin filament organization, bud growth, polar budding, Rho protein signal transduction, establishment of cell polarity (sensu Saccharomyces), mRNA localization\, intracellular -> spindle assembly, response to osmotic stress, actin filament organization, bud growth, polar budding, Rho protein signal transduction, establishment of cell polarity (sensu Saccharomyces), mRNA localization\, intracellular, mitosis	cytoskeletal regulatory protein binding -> cytoskeletal regulatory protein binding	polarisome, actin cap (sensu Saccharomyces) -> cell cortex, site of polarized growth (sensu Fungi), site of polarized growth (sensu Saccharomyces), cytoplasm	IME4, PHO4, SWI5
\|YGR147C\|	NAT2	N-terminal peptidyl-methionine acetylation -> N-terminal peptidyl-methionine acetylation	peptide alpha-N-acetyltransferase activity -> peptide alpha-N-acetyltransferase activity	cytoplasm -> cytoplasm	HIR1, REB1
YPR195C	NO SYMBOL				FKH1, FKH2, HIR1, HIR2, INO4, RLM1
YKL209C	STE6	peptide pheromone export -> peptide pheromone export	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> site of polarized growth (sensu Fungi), membrane	MCM1, STE12
YGR001C	NO SYMBOL
Main:		establishment of cell polarity (sensu Saccharomyces) (0.40)	peptide alpha-N-acetyltransferase activity (0.25)	site of polarized growth (sensu Fungi) (0.75)	FKH2 MCM1 HIR1 (0.33)
Score:		0.10	0.00	0.67	0.200
P-value:		1.697E-01 (establishment of cell polarity (sensu Fungi))	2.351E+00 (hydrolase activity)	2.067E-02 (site of polarized growth (sensu Saccharomyces))	1.297E-01 (HIR1)

ALPHA1(1) AND CCA(1) AND MCM1'(1) AND SCB(1) => SimExpr(YLR084C) OR SimExpr(other) : 5 2

EXPR: (0.191) CCA (P < 0.003) MCM1' (P < 0.008) SCB (P < 0.034) ALPHA1 (P < 0.022)

ORF	SYMBOL	P	F	C	TF
YLR084C	RAX2	bud site selection -> cell proliferation, cell organization and biogenesis		bud neck, bud scar, membrane -> site of polarized growth (sensu Fungi), cell wall, membrane	FKH2, MCM1, NDD1, SKN7, SWI4
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> Rho small monomeric GTPase activity, signal transducer activity	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
\|YGR157W\|	CHO2	phosphatidylcholine biosynthesis -> biosynthesis, lipid metabolism	phosphatidylethanolamine N-methyltransferase activity -> phosphatidylethanolamine N-methyltransferase activity	endoplasmic reticulum -> intracellular	DAL81, INO2, INO4, MET4, SFL1
YKL185W	ASH1	regulation of transcription\, mating-type specific, pseudohyphal growth -> mating-type determination, cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	specific transcriptional repressor activity -> specific transcriptional repressor activity	nucleus -> intracellular	SMP1, SWI5
\|YPL060W\|	LPE10	mitochondrial magnesium ion transport -> transport	magnesium ion transporter activity -> magnesium ion transporter activity	mitochondrial inner membrane -> intracellular, membrane	HIR2
YKL190W	CNB1	cell ion homeostasis, cell wall organization and biogenesis, adaptation to pheromone during conjugation with cellular fusion -> cell homeostasis, cell organization and biogenesis, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	calcium-dependent protein serine/threonine phosphatase activity -> calcium-dependent protein serine/threonine phosphatase activity	cytoplasm -> intracellular	ABF1
YNL065W	AQR1	drug transport, monocarboxylic acid transport -> transport, organic acid transport, response to abiotic stimulus	monocarboxylic acid transporter activity, drug transporter activity -> monocarboxylic acid transporter activity, drug transporter activity	plasma membrane -> membrane	MET4
Main:		cell organization and biogenesis (0.57)	magnesium ion transporter activity (0.17)	intracellular (0.71)	SKN7 MET4 (0.29)
Score:		0.48	0.00	0.62	0.095
P-value:		1.592E-01 (establishment of cell polarity (sensu Fungi))	1.758E-01 (ion transporter activity)	1.308E+00 (membrane)	7.975E-02 (MET4)

BAS1(1) AND PAC(1) => SimExpr(YIL066C) OR SimExpr(other) : 7 2

EXPR: (0.120) BAS1 (P < 0.000) PAC (P < 0.096)

ORF	SYMBOL	P	F	C	TF
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> ribonucleoside-diphosphate reductase activity	cytoplasm -> cytoplasm	RFX1, STB1
YNR024W	NO SYMBOL
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YCR090C\|	NO SYMBOL
\|YBR104W\|	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YBR069C	TAT1	amino acid transport -> transport	transporter activity -> transporter activity	plasma membrane -> plasma membrane	CIN5, DAL81, PHD1, SWI4
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> ATP dependent RNA helicase activity	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.67)	transporter activity (0.50)	cytoplasm (0.40)	RTG3 (0.33)
Score:		0.47	0.17	0.20	0.067
P-value:		3.172E-02 (rRNA processing)	1.249E+00 (transporter activity)	3.718E-01 (nucleolus)	9.163E-02 (RTG3)

ABF1(1) AND ALPHA1'(1) AND SFF'(1) AND SCB(1) => SimExpr(YPL242C) OR SimExpr(other) : 13 6

EXPR: (0.204) ABF1 (P < 0.036) ALPHA1' (P < 0.009) SFF' (P < 0.002) SCB (P < 0.025)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
YFR028C	CDC14	DNA dependent DNA replication, protein amino acid dephosphorylation, regulation of exit from mitosis -> phosphorus metabolism, cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	nucleus, spindle pole body, nucleolus -> cytoplasm, nucleus, microtubule organizing center
YMR010W	NO SYMBOL
YGR056W	RSC1	chromatin modeling -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleosome remodeling complex -> nucleus	ABF1, HIR2
YOR211C	MGM1	mitochondrion organization and biogenesis, mitochondrial genome maintenance, mitochondrial fusion -> cell organization and biogenesis, cytoplasm organization and biogenesis	dynamine GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	mitochondrial intermembrane space -> cytoplasm
YGL225W	VRG4	nucleotide-sugar transport, N-linked glycosylation, lipid glycosylation -> transport, biosynthesis, lipid metabolism, protein metabolism	nucleotide-sugar transporter activity -> nucleotide-sugar transporter activity	Golgi apparatus -> cytoplasm
\|YHL024W\|	RIM4	sporulation, meiosis, premeiotic DNA synthesis, meiotic recombination -> sporulation, M phase, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, cell proliferation	RNA binding -> RNA binding	cytoplasm -> cytoplasm	FKH2, PHD1
\|YDR374C\|	NO SYMBOL				RME1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YDR222W	NO SYMBOL
YPL242C	IQG1	response to osmotic stress, actin filament organization, cytokinesis -> response to abiotic stimulus, cell organization and biogenesis, cell proliferation	cytoskeletal protein binding -> cytoskeletal protein binding	contractile ring (sensu Saccharomyces) -> site of polarized growth (sensu Fungi), cell cortex, cytoplasm	ABF1, FKH2, NDD1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YGR282C\|	BGL2	cell wall organization and biogenesis -> cell organization and biogenesis	glucan 1\,3-beta-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	cell wall -> cell wall	ABF1, CIN5, SMP1
\|YJL159W\|	HSP150	cell wall organization and biogenesis -> cell organization and biogenesis	structural constituent of cell wall -> structural constituent of cell wall	cell wall -> cell wall	ACE2, HIR2, MCM1, RLM1, SWI5
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
\|YMR280C\|	CAT8	gluconeogenesis, positive regulation of transcription from Pol II promoter -> alcohol metabolism, monosaccharide metabolism, carbohydrate metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, biosynthesis, energy pathways	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ABF1, REB1
\|YFL036W\|	RPO41	mitochondrial genome maintenance, transcription from mitochondrial promoter -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	mitochondrial matrix -> cytoplasm
YOL100W	PKH2	protein amino acid phosphorylation, MAPKKK cascade (cell wall biogenesis) -> phosphorus metabolism, signal transduction, cell organization and biogenesis, protein metabolism	protein kinase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> nucleus
Main:		cell organization and biogenesis (0.50)	hydrolase activity\, acting on acid anhydrides (0.13)	cytoplasm (0.53)	ABF1 (0.60)
Score:		0.47	0.03	0.40	0.378
P-value:		1.324E-01 (mitochondrial genome maintenance)	3.224E+00 (carrier activity)	1.145E+00 (bud neck)	2.113E-02 (ABF1)

ABF1(1) AND ALPHA1'(1) AND SFF(1) AND SFF'(1) AND SCB(1) => SimExpr(YPL242C) OR SimExpr(other) : 11 5

EXPR: (0.205) ABF1 (P < 0.048) ALPHA1' (P < 0.015) SFF (P < 0.011) SFF' (P < 0.010) SCB (P < 0.050)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
YFR028C	CDC14	DNA dependent DNA replication, protein amino acid dephosphorylation, regulation of exit from mitosis -> phosphorus metabolism, cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	protein phosphatase activity -> protein phosphatase activity	nucleus, spindle pole body, nucleolus -> cytoplasm, nucleus, microtubule organizing center
YMR010W	NO SYMBOL
YGR056W	RSC1	chromatin modeling -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleosome remodeling complex -> nucleus	ABF1, HIR2
YGL225W	VRG4	nucleotide-sugar transport, N-linked glycosylation, lipid glycosylation -> transport, biosynthesis, lipid metabolism, protein metabolism	nucleotide-sugar transporter activity -> nucleotide-sugar transporter activity	Golgi apparatus -> cytoplasm
\|YHL024W\|	RIM4	sporulation, meiosis, premeiotic DNA synthesis, meiotic recombination -> sporulation, M phase, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, cell proliferation	RNA binding -> RNA binding	cytoplasm -> cytoplasm	FKH2, PHD1
\|YDR374C\|	NO SYMBOL				RME1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> pseudouridylate synthase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YDR222W	NO SYMBOL
YPL242C	IQG1	response to osmotic stress, actin filament organization, cytokinesis -> response to abiotic stimulus, cell organization and biogenesis, cell proliferation	cytoskeletal protein binding -> cytoskeletal protein binding	contractile ring (sensu Saccharomyces) -> site of polarized growth (sensu Fungi), cell cortex, cytoplasm	ABF1, FKH2, NDD1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YGR282C\|	BGL2	cell wall organization and biogenesis -> cell organization and biogenesis	glucan 1\,3-beta-glucosidase activity -> glucan 1\,3-beta-glucosidase activity	cell wall -> cell wall	ABF1, CIN5, SMP1
\|YJL159W\|	HSP150	cell wall organization and biogenesis -> cell organization and biogenesis	structural constituent of cell wall -> structural constituent of cell wall	cell wall -> cell wall	ACE2, HIR2, MCM1, RLM1, SWI5
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity
\|YMR280C\|	CAT8	gluconeogenesis, positive regulation of transcription from Pol II promoter -> alcohol metabolism, monosaccharide metabolism, carbohydrate metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, biosynthesis, energy pathways	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ABF1, REB1
YOL100W	PKH2	protein amino acid phosphorylation, MAPKKK cascade (cell wall biogenesis) -> phosphorus metabolism, signal transduction, cell organization and biogenesis, protein metabolism	protein kinase activity -> protein kinase activity	nucleus -> nucleus
Main:		cell organization and biogenesis (0.42)	protein carrier activity (0.08)	cytoplasm (0.50)	ABF1 (0.60)
Score:		0.42	0.00	0.42	0.378
P-value:		6.951E-01 (external encapsulating structure organization and biogenesis)	1.030E+00 (transporter activity)	9.380E-01 (cell wall)	7.399E-03 (ABF1)

ALPHA1(1) AND ALPHA2(1) AND SWI5(1) AND SCB(1) => SimExpr(YHR046C) OR SimExpr(other) : 11 3

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND SWI5(1) AND SCB(1) => SimExpr(YHR046C) OR SimExpr(other) : 6 1

LYS14(1) AND SFF(1) AND mRRPE(1) AND SCB(1) => SimExpr(YPR074C) : 5

EXPR: (0.139) LYS14 (P < 0.001) SFF (P < 0.000) mRRPE (P < 0.006) SCB (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YHR052W	CIC1	protein catabolism -> macromolecule catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YPR074C	TKL1	pentose-phosphate shunt -> alcohol catabolism, carbohydrate metabolism, coenzyme metabolism, monosaccharide metabolism, water-soluble vitamin metabolism, carbohydrate catabolism, energy derivation by oxidation of organic compounds	transketolase activity -> transketolase activity	cytoplasm -> cytoplasm	REB1
YOR355W	GDS1	aerobic respiration -> energy derivation by oxidation of organic compounds			FHL1, GCR1, PHD1, RLM1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cytoplasm organization and biogenesis, RNA metabolism, transcription	RNA binding -> RNA binding	nucleolus -> nucleus
Main:		energy derivation by oxidation of organic compounds (0.50)	transketolase activity (0.33)	cytoplasm (0.67)	GCR2 (0.25)
Score:		0.17	0.00	0.67	0.000
P-value:		1.611E-01 (energy pathways)	1.433E+00 (binding)	1.001E-01 (nucleolus)	6.150E-01 (MATa1)

ALPHA1'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGL029W) OR SimExpr(other) : 35 13

EXPR: (0.156) ALPHA1' (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YNL132W	KRE33
YML093W	UTP14	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YGL169W\|	SUA5	cell growth and/or maintenance -> cell growth and/or maintenance			ABF1
YJL109C	UTP10	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJL033W	HCA4	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YDR496C	PUF6				RFX1
YNL175C	NOP13		RNA binding -> RNA binding	nucleolus, nucleoplasm -> nucleus	INO2, INO4
YJR070C	NO SYMBOL				GAT3, YAP5
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	USV1
YNL308C	KRI1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> nucleus
YGR162W	TIF4631	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	HSF1
YNR024W	NO SYMBOL
\|YHR169W\|	DBP8	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
\|YGL171W\|	ROK1	35S primary transcript processing, mRNA splicing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity, ATPase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	RGT1
\|YFR001W\|	LOC1	ribosomal large subunit biogenesis -> cell growth and/or maintenance	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell growth and/or maintenance		nucleus -> nucleus
YMR049C	ERB1	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
\|YCL059C\|	KRR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YCR090C\|	NO SYMBOL
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleus, nucleolus -> nucleus	LEU3, PUT3, REB1
YOR359W	VTS1	protein-vacuolar targeting -> protein metabolism, cell growth and/or maintenance	intracellular transporter activity -> transporter activity	cytosol -> cytoplasm	RAP1
YCR016W	NO SYMBOL
\|YCR072C\|	NO SYMBOL				YFL044C
YLR002C	NOC3	DNA replication initiation, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	chromatin binding, protein binding -> DNA binding, protein binding	nucleus, nucleolus -> nucleus	HIR1, IXR1, RCS1
YAL059W	ECM1	cell wall organization and biogenesis -> cell growth and/or maintenance			MOT3
\|YBR104W\|	YMC2	transport -> cell growth and/or maintenance	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
\|YDR184C\|	ATC1	response to stress, polar budding -> response to stress, asexual reproduction		nucleus -> nucleus	ARO80, GLN3, SIP4, SKO1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> cell growth and/or maintenance	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> nucleus, nucleoplasm	ABF1, AZF1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YOR078W	BUD21	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOR095C	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
\|YKL014C\|	NO SYMBOL				ABF1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YHR196W	UTP9	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
\|YGL099W\|	LSG1	conjugation with cellular fusion, sporulation (sensu Saccharomyces), ribosome nucleus export -> conjugation, protein metabolism, cell growth and/or maintenance, sexual reproduction	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm -> cytoplasm	PHO4
Main:		cell growth and/or maintenance (0.78)	RNA binding (0.57)	nucleus (0.79)	ABF1 (0.18)
Score:		0.73	0.35	0.66	0.071
P-value:		1.642E-18 (ribosome biogenesis)	1.203E-08 (snoRNA binding)	5.286E-19 (nucleolus)	6.682E-01 (RCS1)

ALPHA1'(1) AND SFF'(1) AND mRRPE(1) AND PAC(1) AND MCM1'(1) => SimExpr(YGL029W) OR SimExpr(other) : 5 1

EXPR: (0.148) ALPHA1' (P < 0.002) SFF' (P < 0.001) mRRPE (P < 0.033) PAC (P < 0.131) MCM1' (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YCR016W	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> ribosome biogenesis, rRNA processing		nucleolus -> nucleolus
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> rRNA modification, rRNA processing		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> small nuclear ribonucleoprotein complex, nucleolus, ribonucleoprotein complex	ABF1, SWI6
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> rRNA processing, snRNA processing	RNA binding -> RNA binding	nucleolus -> nucleolus
YOR095C	RKI1	pentose-phosphate shunt -> glucose catabolism, main pathways of carbohydrate metabolism, nicotinamide metabolism	ribose-5-phosphate isomerase activity -> ribose-5-phosphate isomerase activity		FHL1, FKH2, RAP1
Main:		rRNA processing (0.75)	ribose-5-phosphate isomerase activity (0.50)	nucleolus (1.00)	SWI6 (0.67)
Score:		0.50	0.00	1.00	0.333
P-value:		8.043E-03 (rRNA processing)	2.000E+00	6.541E-03 (nucleolus)	1.098E-01 (SWI6)

ALPHA2(1) AND PAC(1) => SimExpr(YGL029W) OR SimExpr(other) : 17 3

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGL029W) OR SimExpr(other) : 20 4

EXPR: (0.135) mRRPE (P < 0.000) PAC (P < 0.001) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YPL266W	DIM1	rRNA modification, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA (adenine-N6\,N6-)-dimethyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleolus -> nucleus	ARG81, STP2
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YMR131C	RRB1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> nucleus	FZF1, MATa1, RGT1
YJR070C	NO SYMBOL				GAT3, YAP5
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	USV1
YMR239C	RNT1	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, RNA binding	nucleolus -> nucleus
\|YHR169W\|	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YFR001W\|	LOC1	ribosomal large subunit biogenesis -> cell organization and biogenesis	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
\|YCR072C\|	NO SYMBOL				YFL044C
YKL056C	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YJL069C	UTP18				ABF1
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
YOR095C	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YHR196W	UTP9	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.71)	RNA binding (0.57)	nucleus (0.81)	RAP1 (0.18)
Score:		0.58	0.32	0.70	0.044
P-value:		2.206E-10 (ribosome biogenesis)	3.976E-03 (RNA binding)	1.185E-10 (nucleolus)	1.000E+00

RAP1(1) => SimExpr(YBR295W) OR SimExpr(other) : 54 24

RAP1(1) AND MCM1'(1) => SimExpr(YGR085C) OR SimExpr(other) : 18 5

RAP1(1) AND SCB(1) => SimExpr(YGR085C) OR SimExpr(other) : 11 3

RAP1(1) AND STRE(1) => SimExpr(YGR085C) : 5

RAP1(1) AND ALPHA1(1) AND SCB(1) => SimExpr(YGR085C) : 6

EXPR: (0.073) SCB (P < 0.000) RAP1 (P < 0.011) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> protein biosynthesis, ribosome biogenesis and assembly	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, GAT3, RAP1
YBL087C	RPL23A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YHL033C	RPL8A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> protein biosynthesis, ribosome biogenesis and assembly	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, MIG1
YPR080W	TEF1	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	FHL1, PDR1, RAP1, YAP5
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		protein biosynthesis (1.00)	structural constituent of ribosome (0.67)	ribosome (1.00)	FHL1 (0.83)
Score:		1.00	0.47	1.00	0.667
P-value:		2.955E-05 (protein biosynthesis)	1.496E-03 (structural constituent of ribosome)	2.441E-06 (ribosome)	1.348E-06 (FHL1)

mRRPE(1) AND PAC(1) => SimExpr(YNL110C) OR SimExpr(other) : 78 7

MIG1(1) AND PAC(1) => SimExpr(YNL110C) OR SimExpr(other) : 5 2

EXPR: (0.199) PAC (P < 0.723) MIG1 (P < 0.014)

ORF	SYMBOL	P	F	C	TF
\|YFL011W\|	HXT10	hexose transport -> carbohydrate transport	glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity -> glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity	plasma membrane -> plasma membrane	GTS1, MBP1, RTG3
YJR055W	HIT1	aerobic respiration -> energy derivation by oxidation of organic compounds			STP2
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription\, DNA-dependent		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus
YOR048C	RAT1	35S primary transcript processing, RNA processing -> cytoplasm organization and biogenesis, RNA metabolism, transcription	5'-3' exoribonuclease activity -> 5'-3' exoribonuclease activity	nucleus -> nucleus	REB1, STE12
\|YDR017C\|	KCS1	vacuole organization and biogenesis, response to stress -> cytoplasm organization and biogenesis, response to stress	inositol/phosphatidylinositol kinase activity -> inositol/phosphatidylinositol kinase activity
YNL110C	NOP15	ribosomal large subunit biogenesis -> cytoplasm organization and biogenesis		nucleus, nucleolus -> nucleus, nucleolus
YOR095C	RKI1	pentose-phosphate shunt -> alcohol catabolism, carbohydrate metabolism, coenzyme metabolism, monosaccharide metabolism, water-soluble vitamin metabolism, carbohydrate catabolism, energy derivation by oxidation of organic compounds	ribose-5-phosphate isomerase activity -> ribose-5-phosphate isomerase activity		FHL1, FKH2, RAP1
Main:		cytoplasm organization and biogenesis (0.57)	galactose transporter activity (0.25)	nucleus (0.75)	FKH2 (0.25)
Score:		0.33	0.00	0.50	0.000
P-value:		3.479E-02 (ribosome biogenesis)	2.432E+00 (enzyme activity)	1.712E-01 (nucleolus)	6.805E-01 (STP2)

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YNL110C) : 9

ALPHA2(1) AND ndt80(MSE)(1) => SimExpr(YGR060W) : 5

EXPR: (0.116) ALPHA2 (P < 0.002) ndt80(MSE) (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YBR115C	LYS2	lysine biosynthesis\, aminoadipic pathway -> amine metabolism, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	aminoadipate-semialdehyde dehydrogenase activity -> aminoadipate-semialdehyde dehydrogenase activity	cytoplasm -> cytoplasm	DAL81, GCN4
YPR122W	AXL1	axial budding, bud site selection, conjugation with cellular fusion, peptide pheromone maturation -> asexual reproduction, conjugation, protein metabolism, cell proliferation, cell organization and biogenesis, sexual reproduction	metalloendopeptidase activity -> metalloendopeptidase activity	integral to membrane, bud neck, shmoo tip -> integral to membrane, site of polarized growth (sensu Fungi)	CIN5
YGR060W	ERG25	ergosterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	C-4 methyl sterol oxidase activity -> C-4 methyl sterol oxidase activity	endoplasmic reticulum membrane, plasma membrane -> cytoplasm, plasma membrane, endomembrane system	HSF1, MAL13, MET4, NDD1, SWI5
YOL028C	YAP7	positive regulation of transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	RNA polymerase II transcription factor activity -> RNA polymerase II transcription factor activity	nucleus -> nucleus	NRG1
YFR032C	NO SYMBOL				PUT3, SUM1
Main:		biosynthesis (0.50)	aminoadipate-semialdehyde dehydrogenase activity (0.25)	cytoplasm (0.50)	SUM1 (0.20)
Score:		0.17	0.00	0.17	0.000
P-value:		1.418E+00 (biosynthesis)	2.181E-01 (oxidoreductase activity)	2.047E+00 (membrane)	3.971E-01 (PUT3)

ALPHA1(1) AND ALPHA2(1) AND LYS14(1) AND ALPHA1'(1) AND SFF'(1) => SimExpr(YGR060W) : 5

EXPR: (0.100) ALPHA2 (P < 0.000) LYS14 (P < 0.002) ALPHA1' (P < 0.001) SFF' (P < 0.000) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YPL140C	MKK2	protein amino acid phosphorylation, signal transduction -> phosphorus metabolism, signal transduction, protein metabolism	MAP kinase kinase activity -> MAP kinase kinase activity	intracellular -> intracellular	FKH1, FKH2
YKL054C	DEF1	response to DNA damage, ubiquitin-dependent protein catabolism -> response to biotic stimulus, catabolism, protein metabolism		nucleus -> intracellular
YBR115C	LYS2	lysine biosynthesis\, aminoadipic pathway -> amine metabolism, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	aminoadipate-semialdehyde dehydrogenase activity -> aminoadipate-semialdehyde dehydrogenase activity	cytoplasm -> intracellular	DAL81, GCN4
YKL209C	STE6	peptide pheromone export -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> integral to membrane, site of polarized growth (sensu Fungi), plasma membrane	MCM1, STE12
YGR060W	ERG25	ergosterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	C-4 methyl sterol oxidase activity -> C-4 methyl sterol oxidase activity	endoplasmic reticulum membrane, plasma membrane -> intracellular, plasma membrane, endomembrane system	HSF1, MAL13, MET4, NDD1, SWI5
Main:		biosynthesis (0.40)	aminoadipate-semialdehyde dehydrogenase activity (0.25)	intracellular (0.80)	FKH2 (0.25)
Score:		0.20	0.00	0.70	0.000
P-value:		1.985E+00 (biosynthesis)	2.181E-01 (oxidoreductase activity)	3.563E-01 (plasma membrane)	5.638E-01 (MAL13)

RAP1(1) AND zap1(1) => SimExpr(YBR118W) : 5

EXPR: (0.131) zap1 (P < 0.000) RAP1 (P < 0.013)

ORF	SYMBOL	P	F	C	TF
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> GTPase activator activity	plasma membrane -> plasma membrane	DIG1, FHL1, RAP1, STE12
YGR254W	ENO1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphopyruvate hydratase activity -> phosphopyruvate hydratase activity	phosphopyruvate hydratase complex, cytoplasm -> cytoplasm	FKH2, MSN4, PDR1, SWI5, YAP5
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> phosphoglycerate mutase activity	cytosol -> cytoplasm	GCR1, GCR2, HSF1, RAP1
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
YBR118W	TEF2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
Main:		biosynthesis (0.80)	translation elongation factor activity (0.40)	cytoplasm (0.80)	RAP1 (0.80)
Score:		0.60	0.10	0.60	0.700
P-value:		1.036E-02 (translational elongation)	1.700E-03 (translation elongation factor activity)	4.251E-01 (ribosome)	6.212E-04 (RAP1)

RAP1(1) AND mRRPE(1) => SimExpr(YMR014W) OR SimExpr(other) : 10 3

RAP1(1) => SimExpr(YGL076C) OR SimExpr(other) : 53 25

RAP1(1) AND ATRepeat(1) => SimExpr(YGL076C) OR SimExpr(other) : 6 1

RAP1(1) AND SFF'(1) AND ATRepeat(1) => SimExpr(YGL076C) : 5

EXPR: (0.081) SFF' (P < 0.000) ATRepeat (P < 0.000) RAP1 (P < 0.023)

ORF	SYMBOL	P	F	C	TF
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> spermine synthase activity
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YKL152C	GPM1	gluconeogenesis, glycolysis -> alcohol metabolism, carbohydrate biosynthesis, carbohydrate metabolism, energy derivation by oxidation of organic compounds, biosynthesis, catabolism	phosphoglycerate mutase activity -> phosphoglycerate mutase activity	cytosol -> cytosol	GCR1, GCR2, HSF1, RAP1
YPL180W	BIT89	glycerol metabolism -> alcohol metabolism, glycerol ether metabolism, lipid metabolism			REB1, RGT1, SIG1
YGL076C	RPL7A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome
Main:		biosynthesis (0.80)	structural constituent of ribosome (0.50)	cytosol (1.00)	GCR2 (0.33)
Score:		0.70	0.17	1.00	0.000
P-value:		7.226E-02 (biosynthesis)	1.579E-01 (structural constituent of ribosome)	1.052E-01 (cytosol)	7.933E-01 (RGT1)

RAP1(1) AND ALPHA1'(1) => SimExpr(YHL033C) OR SimExpr(other) : 30 11

RAP1(1) AND SCB(1) => SimExpr(YHL033C) OR SimExpr(other) : 11 3

RAP1(1) AND ALPHA1'(1) AND SCB(1) => SimExpr(YHL033C) : 7

EXPR: (0.101) ALPHA1' (P < 0.000) SCB (P < 0.000) RAP1 (P < 0.080)

ORF	SYMBOL	P	F	C	TF
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> protein biosynthesis, ribosome biogenesis and assembly	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YHL033C	RPL8A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1
YLR344W	RPL26A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YPR080W	TEF1	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	FHL1, PDR1, RAP1, YAP5
YBR118W	TEF2	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	FHL1, RAP1
Main:		protein biosynthesis (1.00)	structural constituent of ribosome (0.67)	ribosome (1.00)	FHL1 (0.86)
Score:		1.00	0.47	1.00	0.714
P-value:		9.938E-05 (protein biosynthesis)	3.701E-03 (structural constituent of ribosome)	1.598E-05 (ribosome)	4.698E-08 (FHL1)

RAP1(1) AND ALPHA1(1) AND SCB(1) => SimExpr(YHL033C) : 6

RAP1(1) => SimExpr(YLR003C) OR SimExpr(other) : 56 22

RAP1(1) AND SFF(1) => SimExpr(YLR003C) OR SimExpr(other) : 35 13

RAP1(1) AND mRRPE(1) => SimExpr(YLR003C) OR SimExpr(other) : 11 2

RAP1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YLR003C) : 5

EXPR: (0.110) SFF (P < 0.000) mRRPE (P < 0.014) RAP1 (P < 0.014)

ORF	SYMBOL	P	F	C	TF
YLR146C	SPE4	pantothenate biosynthesis, spermine biosynthesis -> biosynthesis, amine metabolism, coenzymes and prosthetic group metabolism, amino acid and derivative metabolism, secondary metabolism	spermine synthase activity -> spermine synthase activity
YOL121C	RPS19A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	AZF1, FHL1, GCR1, GCR2, HAL9, MET31, MOT3, PDR1, RAP1, ROX1, RPH1, SMP1, YAP6, ZAP1
YLR003C	NO SYMBOL				ABF1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> snoRNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.75)	translation elongation factor activity (0.25)	ribonucleoprotein complex (1.00)	RAP1 FHL1 (0.50)
Score:		0.50	0.00	1.00	0.167
P-value:		5.260E-01 (biosynthesis)	7.667E-01 (nucleic acid binding)	7.214E-02 (ribonucleoprotein complex)	1.681E-01 (FHL1)

RAP1(1) AND SFF(1) => SimExpr(YOR369C) OR SimExpr(other) : 34 14

RAP1(1) AND ALPHA1'(1) => SimExpr(YOR369C) OR SimExpr(other) : 28 13

RAP1(1) AND SWI5(1) => SimExpr(YOR369C) OR SimExpr(other) : 19 9

RAP1(1) AND ALPHA2(1) => SimExpr(YOR369C) OR SimExpr(other) : 9 3

RAP1(1) AND ATRepeat(1) => SimExpr(YOR369C) OR SimExpr(other) : 6 1

RAP1(1) AND SCB(1) => SimExpr(YOR369C) OR SimExpr(other) : 10 4

RAP1(1) AND ALPHA1'(1) AND SFF(1) => SimExpr(YOR369C) OR SimExpr(other) : 18 5

RAP1(1) AND ALPHA2(1) AND SFF(1) => SimExpr(YOR369C) : 7

EXPR: (0.110) ALPHA2 (P < 0.000) SFF (P < 0.000) RAP1 (P < 0.032)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to membrane -> integral to membrane
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YJR139C	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> homoserine dehydrogenase activity		HMS1, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.71)	structural constituent of ribosome (0.43)	ribonucleoprotein complex (0.83)	RAP1 FHL1 (0.50)
Score:		0.48	0.14	0.67	0.333
P-value:		3.135E-02 (protein biosynthesis)	4.291E-02 (structural constituent of ribosome)	2.596E-03 (ribonucleoprotein complex)	1.637E-02 (FHL1)

RAP1(1) AND SWI5(1) AND SCB(1) => SimExpr(YOR369C) : 5

EXPR: (0.098) SWI5 (P < 0.000) SCB (P < 0.000) RAP1 (P < 0.033)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YLR344W	RPL26A	protein biosynthesis -> protein biosynthesis	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YPR080W	TEF1	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	FHL1, PDR1, RAP1, YAP5
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		protein biosynthesis (1.00)	structural constituent of ribosome (0.60)	ribosome (1.00)	FHL1 (0.80)
Score:		1.00	0.40	1.00	0.600
P-value:		1.442E-04 (protein biosynthesis)	1.912E-03 (translation elongation factor activity)	3.195E-05 (ribosome)	5.364E-05 (FHL1)

RAP1(1) AND SFF'(1) AND ATRepeat(1) => SimExpr(YOR369C) : 5

RAP1(1) AND ALPHA2(1) AND SFF'(1) AND SWI5(1) => SimExpr(YOR369C) : 5

EXPR: (0.092) ALPHA2 (P < 0.000) SFF' (P < 0.000) SWI5 (P < 0.000) RAP1 (P < 0.018)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to membrane -> integral to membrane
YDL184C	RPL41A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		protein biosynthesis (0.80)	structural constituent of ribosome (0.60)	ribosome (0.80)	FHL1 (0.75)
Score:		0.60	0.30	0.60	0.500
P-value:		5.370E-03 (protein biosynthesis)	9.569E-03 (structural constituent of ribosome)	1.947E-03 (ribosome)	4.416E-03 (FHL1)

RAP1(1) AND ALPHA1(1) AND ALPHA2(1) AND SFF'(1) => SimExpr(YDL184C) : 6

EXPR: (0.117) ALPHA2 (P < 0.000) SFF' (P < 0.000) RAP1 (P < 0.021) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YJR139C	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> homoserine dehydrogenase activity		HMS1, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.83)	structural constituent of ribosome (0.50)	ribonucleoprotein complex (1.00)	RAP1 (0.50)
Score:		0.67	0.20	1.00	0.200
P-value:		1.471E-02 (protein biosynthesis)	2.197E-02 (structural constituent of ribosome)	8.124E-04 (ribonucleoprotein complex)	1.581E-02 (HMS1)

RAP1(1) AND ALPHA1(1) AND ALPHA2(1) AND SFF(1) => SimExpr(YDL184C) : 5

EXPR: (0.109) ALPHA2 (P < 0.000) SFF (P < 0.000) RAP1 (P < 0.017) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YDL043C	PRP11	spliceosome assembly -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	snRNP U2 -> nucleus, ribonucleoprotein complex	DAL81, STP1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YJR139C	HOM6	homoserine biosynthesis, methionine metabolism, threonine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine dehydrogenase activity -> homoserine dehydrogenase activity		HMS1, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.80)	structural constituent of ribosome (0.40)	ribonucleoprotein complex (1.00)	RAP1 (0.60)
Score:		0.60	0.10	1.00	0.300
P-value:		6.423E-02 (biosynthesis)	1.895E-01 (structural constituent of ribosome)	6.464E-03 (ribonucleoprotein complex)	8.065E-03 (HMS1)

RAP1(1) AND mRRPE(1) => SimExpr(YDL130W) OR SimExpr(other) : 11 2

RAP1(1) AND ALPHA1'(1) => SimExpr(YPL131W) OR SimExpr(other) : 30 11

RAP1(1) AND SCB(1) => SimExpr(YPL131W) OR SimExpr(other) : 11 3

RAP1(1) AND ALPHA1'(1) AND SCB(1) => SimExpr(YPL131W) : 7

RAP1(1) AND ALPHA1(1) AND SCB(1) => SimExpr(YPL131W) : 6

RAP1(1) AND MCM1'(1) => SimExpr(YGL030W) OR SimExpr(other) : 17 6

RAP1(1) AND SWI5(1) => SimExpr(YGL030W) OR SimExpr(other) : 21 7

RAP1(1) AND mRRPE(1) => SimExpr(YGL030W) OR SimExpr(other) : 11 2

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YGL030W) : 7

RAP1(1) => SimExpr(YKR092C) OR SimExpr(other) : 53 25

RAP1(1) AND SWI5(1) => SimExpr(YKR092C) OR SimExpr(other) : 20 8

RAP1(1) AND SFF(1) => SimExpr(YOL121C) OR SimExpr(other) : 34 14

RAP1(1) AND mRRPE(1) => SimExpr(YOL121C) OR SimExpr(other) : 11 2

RAP1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YOL121C) : 5

RAP1(1) => SimExpr(YNL288W) OR SimExpr(other) : 55 23

RAP1(1) AND STRE(1) => SimExpr(YNL288W) : 5

RAP1(1) AND SWI5(1) => SimExpr(YKL006W) OR SimExpr(other) : 21 7

RAP1(1) AND MCM1'(1) => SimExpr(YKL006W) OR SimExpr(other) : 17 6

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YKL006W) : 7

RAP1(1) AND SFF(1) => SimExpr(YLR441C) OR SimExpr(other) : 34 14

RAP1(1) => SimExpr(YLR452C) OR SimExpr(other) : 53 25

RAP1(1) AND MCM1'(1) => SimExpr(YLR452C) OR SimExpr(other) : 17 6

RAP1(1) AND SWI5(1) => SimExpr(YLR452C) OR SimExpr(other) : 21 7

RAP1(1) AND SWI5(1) AND MCM1'(1) => SimExpr(YLR452C) : 7

RAP1(1) AND ALPHA2(1) => SimExpr(YBR048W) OR SimExpr(other) : 9 3

RAP1(1) AND mRRPE(1) => SimExpr(YBR048W) OR SimExpr(other) : 11 2

RAP1(1) AND ALPHA1'(1) => SimExpr(YJR123W) OR SimExpr(other) : 30 11

RAP1(1) AND SFF(1) => SimExpr(YLR208W) OR SimExpr(other) : 35 13

RAP1(1) AND SCB(1) => SimExpr(YLR208W) OR SimExpr(other) : 11 3

RAP1(1) AND SFF(1) AND SCB(1) => SimExpr(YLR208W) : 10

EXPR: (0.106) SFF (P < 0.000) SCB (P < 0.000) RAP1 (P < 0.004)

ORF	SYMBOL	P	F	C	TF
YPL131W	RPL5	protein biosynthesis, ribosomal large subunit assembly and maintenance -> macromolecule biosynthesis, cytoplasm organization and biogenesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1
YNL024C	NO SYMBOL				GRF10(Pho2)
YBL087C	RPL23A	protein biosynthesis -> macromolecule biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YHL033C	RPL8A	protein biosynthesis -> macromolecule biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1
YLR344W	RPL26A	protein biosynthesis -> macromolecule biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> macromolecule biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YLR208W	SEC13	nonselective vesicle assembly, ER to Golgi transport, ER-associated protein catabolism -> vesicle-mediated transport, intracellular transport, macromolecule catabolism, secretory pathway, protein metabolism		cytoplasm, COPII vesicle coat, nuclear pore, extrinsic to plasma membrane -> nucleus, extrinsic to membrane, cytoplasm, membrane coat, integral to membrane, endomembrane system, plasma membrane
YGR085C	RPL11B	protein biosynthesis, ribosomal large subunit assembly and maintenance -> macromolecule biosynthesis, cytoplasm organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MIG1
YOL160W	NO SYMBOL				ARO80, NRG1, PHO4, RLM1, SIP4, SWI6
YLR249W	YEF3	translational elongation -> macromolecule biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		protein metabolism (1.00)	structural constituent of ribosome (0.86)	cytoplasm (1.00)	FHL1 (0.67)
Score:		1.00	0.71	1.00	0.417
P-value:		2.681E-04 (protein biosynthesis)	4.826E-05 (structural constituent of ribosome)	1.377E-05 (cytosolic ribosome (sensu Eukarya))	2.424E-06 (FHL1)

ALPHA2(1) AND PAC(1) => SimExpr(YLR249W) OR SimExpr(other) : 18 2

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YLR249W) OR SimExpr(other) : 21 3

mRRPE(1) AND SWI5(1) AND PAC(1) => SimExpr(YLR249W) OR SimExpr(other) : 14 3

RAP1(1) AND SCB(1) => SimExpr(YLR249W) OR SimExpr(other) : 11 3

RAP1(1) AND mRRPE(1) => SimExpr(YLR249W) OR SimExpr(other) : 11 2

RAP1(1) AND ALPHA2(1) => SimExpr(YLR249W) OR SimExpr(other) : 9 3

RAP1(1) AND SWI5(1) => SimExpr(YLR249W) OR SimExpr(other) : 21 7

ALPHA1(1) AND SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YLR249W) OR SimExpr(other) : 5 1

EXPR: (0.137) SWI5 (P < 0.003) PAC (P < 0.105) SCB (P < 0.009) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YJL109C	UTP10	processing of 20S pre-rRNA -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent		nucleus -> nucleus	STB1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> ribosome biogenesis and assembly, conjugation with cellular fusion	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		ribosome biogenesis and assembly (0.75)	RNA binding (0.67)	nucleus (0.75)	INO4 (0.40)
Score:		0.50	0.33	0.67	0.100
P-value:		2.893E-02 (ribosome biogenesis and assembly)	2.989E-01 (nucleic acid binding)	1.464E-01 (nucleolus)	1.496E-01 (INO4)

RAP1(1) AND STRE(1) => SimExpr(YLR249W) : 5

RAP1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YLR249W) : 5

ALPHA2(1) AND PAC(1) AND SCB(1) => SimExpr(YLR249W) : 8

EXPR: (0.116) ALPHA2 (P < 0.001) PAC (P < 0.029) SCB (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
YLR336C	SGD1	osmoregulation -> osmoregulation		nucleus -> nucleus
YIL096C	NO SYMBOL				GAT3, HAP2, MOT3, RTS2
YJR070C	NO SYMBOL				GAT3, YAP5
YML108W	NO SYMBOL
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> co-chaperone activity	cytoplasm -> cytoplasm	HSF1, MSN4
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		protein metabolism (0.40)	nucleic acid binding (0.75)	nucleus (0.60)	GAT3 INO4 (0.40)
Score:		0.10	0.50	0.50	0.200
P-value:		3.825E+00 (cytoplasm organization and biogenesis)	5.529E-01 (RNA binding)	1.459E+00 (ribonucleoprotein complex)	7.618E-02 (GAT3)

RAP1(1) AND ALPHA2(1) AND SWI5(1) => SimExpr(YLR249W) : 7

EXPR: (0.100) ALPHA2 (P < 0.000) SWI5 (P < 0.000) RAP1 (P < 0.055)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YBR181C	RPS6B	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> cytosol, cytoplasm, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	FHL1, GAT3, MAL13, RAP1, RGM1
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to membrane -> integral to membrane
YNL311C	NO SYMBOL				GCN4, RAP1
YDL184C	RPL41A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		protein biosynthesis (0.83)	structural constituent of ribosome (0.67)	ribosome (0.83)	RAP1 FHL1 (0.67)
Score:		0.67	0.40	0.67	0.600
P-value:		2.228E-03 (protein biosynthesis)	1.850E-03 (structural constituent of ribosome)	8.021E-04 (ribosome)	5.160E-04 (FHL1)

RAP1(1) AND SWI5(1) AND SCB(1) => SimExpr(YLR249W) : 5

RAP1(1) AND ALPHA1(1) AND SCB(1) => SimExpr(YLR249W) : 6

RAP1(1) AND ALPHA1'(1) => SimExpr(YNL096C) OR SimExpr(other) : 29 12

RAP1(1) => SimExpr(YLR146C) OR SimExpr(other) : 54 24

RAP1(1) AND SFF(1) => SimExpr(YLR146C) OR SimExpr(other) : 36 12

RAP1(1) AND MCM1'(1) => SimExpr(YLR146C) OR SimExpr(other) : 17 6

RAP1(1) AND ATRepeat(1) => SimExpr(YLR146C) OR SimExpr(other) : 6 1

RAP1(1) AND mRRPE(1) => SimExpr(YLR146C) OR SimExpr(other) : 11 2

RAP1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YLR146C) : 5

RAP1(1) AND SFF'(1) AND ATRepeat(1) => SimExpr(YLR146C) : 5

RAP1(1) AND SFF(1) => SimExpr(YDR406W) OR SimExpr(other) : 34 14

RAP1(1) AND SWI5(1) => SimExpr(YBL087C) OR SimExpr(other) : 20 8

RAP1(1) AND SCB(1) => SimExpr(YBL087C) OR SimExpr(other) : 11 3

RAP1(1) AND SFF'(1) AND SWI5(1) => SimExpr(YBL087C) OR SimExpr(other) : 14 6

EXPR: (0.179) SFF' (P < 0.000) SWI5 (P < 0.000) RAP1 (P < 0.497)

ORF	SYMBOL	P	F	C	TF
YOR312C	RPL20B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, FKH2, GAT3, RAP1
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> ATPase activity\, coupled to transmembrane movement of substances, P-P-bond-hydrolysis-driven transporter activity, cation transporter activity	membrane -> membrane	GAL4, SMP1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
\|YBR098W\|	MMS4	DNA repair, meiotic recombination -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	transcription co-activator activity, endonuclease activity -> protein binding, endonuclease activity	nucleus -> nucleus
YJR145C	RPS4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
\|YMR224C\|	MRE11	DNA repair, double-strand break repair via nonhomologous end-joining, meiotic DNA double-strand break formation, meiotic DNA double-strand break processing, double-strand break repair via break-induced replication -> DNA metabolism, cell proliferation, catabolism	endonuclease activity, 3'-5' exonuclease activity, protein binding -> endonuclease activity, 3'-5' exonuclease activity, protein binding	nucleus -> nucleus	RAP1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> GTPase activator activity	plasma membrane -> membrane	DIG1, FHL1, RAP1, STE12
\|YGL115W\|	SNF4	regulation of transcription from Pol II promoter, peroxisome organization and biogenesis -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein kinase activator activity -> protein kinase activator activity	plasma membrane, nucleus, cytoplasm -> membrane, nucleus, cytoplasm	BAS1, CAD1, MAC1, NRG1, PDR1, RAP1, SMP1, YAP5
\|YJL217W\|	NO SYMBOL				CIN5, MAC1, PHD1, SWI5, YAP6
\|YGL196W\|	NO SYMBOL
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATPase activity\, coupled to transmembrane movement of substances, P-P-bond-hydrolysis-driven transporter activity	integral to membrane -> membrane
YKL006W	RPL14A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
\|YMR013C\|	SEC59	protein-ER targeting, protein amino acid glycosylation -> cell organization and biogenesis, biosynthesis, protein modification, protein metabolism, transport	dolichol kinase activity -> dolichol kinase activity	membrane -> membrane	FHL1, NDD1, RAP1, RLM1, RME1
YLR441C	RPS1A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.61)	structural constituent of ribosome (0.50)	cytoplasm (0.61)	RAP1 (0.76)
Score:		0.40	0.25	0.46	0.713
P-value:		4.771E-05 (protein biosynthesis)	1.951E-05 (structural constituent of ribosome)	9.610E-07 (cytosolic ribosome (sensu Eukarya))	3.609E-11 (FHL1)

RAP1(1) AND SFF(1) AND SWI5(1) => SimExpr(YBL087C) OR SimExpr(other) : 14 4

EXPR: (0.151) SFF (P < 0.000) SWI5 (P < 0.000) RAP1 (P < 0.165)

ORF	SYMBOL	P	F	C	TF
YOR312C	RPL20B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, FKH2, GAT3, RAP1
YBR295W	PCA1	copper ion homeostasis -> cell homeostasis	P-type ATPase activity -> ATPase activity\, coupled to transmembrane movement of substances, P-P-bond-hydrolysis-driven transporter activity, cation transporter activity	membrane -> membrane	GAL4, SMP1
YBL087C	RPL23A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
\|YBR098W\|	MMS4	DNA repair, meiotic recombination -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	transcription co-activator activity, endonuclease activity -> protein binding, endonuclease activity	nucleus -> nucleus
YJR145C	RPS4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya), cytoplasm -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ACE2, CIN5, FHL1, INO4, MTH1, RAP1, YAP6
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
\|YMR224C\|	MRE11	DNA repair, double-strand break repair via nonhomologous end-joining, meiotic DNA double-strand break formation, meiotic DNA double-strand break processing, double-strand break repair via break-induced replication -> DNA metabolism, cell proliferation, catabolism	endonuclease activity, 3'-5' exonuclease activity, protein binding -> endonuclease activity, 3'-5' exonuclease activity, protein binding	nucleus -> nucleus	RAP1
YLR344W	RPL26A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR369C	RPS12	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YLR452C	SST2	signal transduction, adaptation to pheromone during conjugation with cellular fusion -> signal transduction, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	GTPase activator activity -> GTPase activator activity	plasma membrane -> membrane	DIG1, FHL1, RAP1, STE12
\|YGL115W\|	SNF4	regulation of transcription from Pol II promoter, peroxisome organization and biogenesis -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein kinase activator activity -> protein kinase activator activity	plasma membrane, nucleus, cytoplasm -> membrane, nucleus, cytoplasm	BAS1, CAD1, MAC1, NRG1, PDR1, RAP1, SMP1, YAP5
\|YJL217W\|	NO SYMBOL				CIN5, MAC1, PHD1, SWI5, YAP6
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATPase activity\, coupled to transmembrane movement of substances, P-P-bond-hydrolysis-driven transporter activity	integral to membrane -> membrane
YKL006W	RPL14A	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, GRF10(Pho2), GTS1, RAP1
YDL184C	RPL41A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YNL069C	RPL16B	protein biosynthesis -> biosynthesis, protein metabolism	RNA binding, structural constituent of ribosome -> RNA binding, structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
YLR441C	RPS1A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, GAT3, RAP1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation elongation factor activity	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		biosynthesis (0.59)	structural constituent of ribosome (0.53)	cytoplasm (0.65)	RAP1 (0.75)
Score:		0.35	0.28	0.49	0.700
P-value:		1.122E-04 (protein biosynthesis)	6.246E-06 (structural constituent of ribosome)	2.993E-07 (cytosolic ribosome (sensu Eukarya))	3.617E-10 (FHL1)

RAP1(1) AND SWI5(1) AND SCB(1) => SimExpr(YBL087C) : 5

RAP1(1) AND ALPHA1(1) AND SCB(1) => SimExpr(YBL087C) : 6

RAP1(1) AND ALPHA2(1) AND SFF'(1) AND SWI5(1) => SimExpr(YBL087C) : 5

RAP1(1) AND ALPHA2(1) AND SFF(1) AND SWI5(1) => SimExpr(YBL087C) : 5

EXPR: (0.083) ALPHA2 (P < 0.000) SFF (P < 0.000) SWI5 (P < 0.000) RAP1 (P < 0.015)

ORF	SYMBOL	P	F	C	TF
YBL087C	RPL23A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, IXR1, MSS11, PDR1, RAP1, SMP1, SOK2
YOR369C	RPS12	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> cytosol, eukaryotic 43S pre-initiation complex, eukaryotic 48S initiation complex, ribosome	ARG80, FHL1, FKH2, LEU3, NDD1, PDR1, RME1, SMP1, YAP6
YDR406W	PDR15	transport -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to membrane -> integral to membrane
YDL184C	RPL41A	protein biosynthesis -> protein biosynthesis	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytosol, ribosome	FHL1, HAL9, HMS1, MAC1, MSS11, RAP1, RME1, SIG1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation elongation factor activity	ribosome -> ribosome	INO2, INO4
Main:		protein biosynthesis (0.80)	structural constituent of ribosome (0.60)	ribosome (0.80)	FHL1 (0.75)
Score:		0.60	0.30	0.60	0.500
P-value:		5.370E-03 (protein biosynthesis)	9.569E-03 (structural constituent of ribosome)	1.947E-03 (ribosome)	4.416E-03 (FHL1)

RAP1(1) AND mRRPE(1) => SimExpr(YPR080W) OR SimExpr(other) : 9 4

RAP1(1) AND ALPHA1(1) AND SCB(1) => SimExpr(YPR080W) : 6

RAP1(1) AND SFF(1) => SimExpr(YDR449C) OR SimExpr(other) : 34 14

RAP1(1) AND ALPHA1'(1) => SimExpr(YDR449C) OR SimExpr(other) : 29 12

RAP1(1) AND mRRPE(1) => SimExpr(YDR449C) OR SimExpr(other) : 10 3

RAP1(1) AND ALPHA1'(1) AND SFF(1) => SimExpr(YDR449C) OR SimExpr(other) : 19 4

RAP1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YDR449C) : 5

RPN4(1) AND MCM1'(1) AND SCB(1) => SimExpr(YGL096W) : 5

ALPHA1'(1) AND STE12(1) AND PAC(1) => SimExpr(YGR251W) OR SimExpr(other) : 5 1

EXPR: (0.172) ALPHA1' (P < 0.004) STE12 (P < 0.010) PAC (P < 0.332)

ORF	SYMBOL	P	F	C	TF
YNL308C	KRI1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> nucleus
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YAL059W	ECM1	cell wall organization and biogenesis -> cell organization and biogenesis			MOT3
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, HIR1, RCS1
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell organization and biogenesis, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> exosome (RNase complex), cytoplasm, nucleus	ZMS1
\|YMR302C\|	PRP12	mitochondrial genome maintenance, rRNA processing -> cell organization and biogenesis, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	exonuclease activity -> hydrolase activity\, acting on ester bonds	mitochondrial inner membrane -> cytoplasm, inner membrane
Main:		cell organization and biogenesis (1.00)	RNA binding (0.67)	nucleus (0.75)	ABF1 (0.25)
Score:		1.00	0.67	0.67	0.000
P-value:		5.262E-04 (ribosome biogenesis)	1.709E-02 (exonuclease activity)	1.464E-01 (nucleolus)	2.968E-01 (ZMS1)

mRRPE(1) AND PHO(1) => SimExpr(YGR233C) OR SimExpr(other) : 8 3

EXPR: (0.197) mRRPE (P < 0.154) PHO (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YBR143C	SUP45	translational termination -> biosynthesis, protein metabolism	translation release factor activity\, codon specific -> translation release factor activity\, codon specific	cytosol -> cytoplasm	FZF1
YLR333C	RPS25B	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	FHL1, RAP1
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YHR007C	ERG11	ergosterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	sterol 14-demethylase activity -> sterol 14-demethylase activity	endoplasmic reticulum -> cytoplasm
YGR233C	PHO81	phosphate metabolism -> phosphorus metabolism	cyclin-dependent protein kinase inhibitor activity -> cyclin-dependent protein kinase inhibitor activity		CAD1, CIN5, HIR2, INO4, PHD1
YDR217C	RAD9	DNA repair, regulation of cell cycle, nucleotide-excision repair, DNA damage checkpoint, positive regulation of transcription from Pol II promoter -> cell proliferation, cell cycle, response to biotic stimulus, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein binding -> protein binding	nucleus -> nucleus
YPL032C	SVL3	endocytosis -> transport			FKH1, HSF1
\|YJR122W\|	CAF17				YAP1
YBR031W	RPL4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex
YDL167C	NRP1
\|YGL162W\|	SUT1	regulation of transcription from Pol II promoter, sterol transport -> transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus
Main:		biosynthesis (0.56)	structural constituent of ribosome (0.25)	cytoplasm (0.71)	FZF1 (0.17)
Score:		0.33	0.04	0.52	0.000
P-value:		5.164E-01 (protein biosynthesis)	8.253E-01 (structural constituent of ribosome)	9.328E-01 (cytosolic ribosome (sensu Eukarya))	1.000E+00

LYS14(1) AND PAC(1) => SimExpr(YMR290C) OR SimExpr(other) : 13 6

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YMR290C) : 9

ALPHA1(1) AND ABF1(1) AND mRRPE(1) => SimExpr(YDR091C) OR SimExpr(other) : 10 4

EXPR: (0.185) ABF1 (P < 0.003) mRRPE (P < 0.072) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
\|YHR061C\|	GIC1	axial budding, Rho protein signal transduction, establishment of cell polarity (sensu Saccharomyces) -> asexual reproduction, signal transduction, cell organization and biogenesis	small GTPase regulatory/interacting protein activity -> small GTPase regulatory/interacting protein activity	actin cap (sensu Saccharomyces), bud neck, bud tip, incipient bud site -> cell cortex, site of polarized growth (sensu Fungi), incipient bud site, cytoplasm	FKH2, MBP1, STB1, SWI4, SWI6
\|YDR374C\|	NO SYMBOL				RME1
YGL253W	HXK2	fructose metabolism -> alcohol metabolism, carbohydrate metabolism	hexokinase activity -> carbohydrate kinase activity, transferase activity\, transferring phosphorus-containing groups	nucleus, cytosol -> nucleus, cytoplasm	ABF1, CIN5, HSF1, SWI4
YDR385W	EFT2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	ABF1, FHL1, INO4
YDL116W	NUP84	mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear membrane organization and biogenesis, nuclear pore organization and biogenesis -> intracellular transport, intracellular protein transport, cell organization and biogenesis, protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transport	structural molecule activity -> structural molecule activity	nuclear pore -> nucleus, integral to membrane, endomembrane system	ABF1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YJL159W\|	HSP150	cell wall organization and biogenesis -> cell organization and biogenesis	structural constituent of cell wall -> structural molecule activity	cell wall -> cell wall	ACE2, HIR2, MCM1, RLM1, SWI5
\|YIR010W\|	DSN1	chromosome segregation -> cell proliferation		spindle pole -> cytoplasm	ABF1
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YDR172W	SUP35	translational termination -> biosynthesis, protein metabolism	translation release factor activity -> translation factor activity\, nucleic acid binding	cytosol -> cytoplasm	ABF1, ZMS1
YJL069C	UTP18				ABF1
YLR347C	KAP95	protein-nucleus import -> protein metabolism, transport	protein carrier activity -> protein carrier activity	cytoplasm, nuclear pore -> cytoplasm, nucleus, integral to membrane, endomembrane system	ABF1, INO4
YBR031W	RPL4A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex
Main:		protein metabolism (0.45)	structural molecule activity (0.27)	cytoplasm (0.73)	ABF1 (0.75)
Score:		0.35	0.09	0.56	0.561
P-value:		8.446E-02 (nucleocytoplasmic transport)	1.710E-02 (protein carrier activity)	3.602E-01 (nuclear pore)	8.105E-07 (ABF1)

ABF1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YDL116W) OR SimExpr(other) : 13 6

EXPR: (0.187) ABF1 (P < 0.009) SFF (P < 0.001) mRRPE (P < 0.131)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
\|YAR019C\|	CDC15	cytokinesis, regulation of exit from mitosis, protein amino acid phosphorylation -> phosphorus metabolism, cell proliferation, mitotic cell cycle, protein metabolism	protein kinase activity -> transferase activity\, transferring phosphorus-containing groups	spindle pole body -> cytoplasm	PHO4
YHR061C	GIC1	axial budding, Rho protein signal transduction, establishment of cell polarity (sensu Saccharomyces) -> asexual reproduction, signal transduction, cell organization and biogenesis	small GTPase regulatory/interacting protein activity -> small GTPase regulatory/interacting protein activity	actin cap (sensu Saccharomyces), bud neck, bud tip, incipient bud site -> cell cortex, site of polarized growth (sensu Fungi), incipient bud site, cytoplasm	FKH2, MBP1, STB1, SWI4, SWI6
YMR308C	PSE1	mRNA-nucleus export -> transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	SWI4
\|YDR374C\|	NO SYMBOL				RME1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YDR385W	EFT2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	ABF1, FHL1, INO4
YDL116W	NUP84	mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear membrane organization and biogenesis, nuclear pore organization and biogenesis -> intracellular transport, intracellular protein transport, cell organization and biogenesis, protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transport	structural molecule activity -> structural molecule activity	nuclear pore -> nucleus, integral to membrane, endomembrane system	ABF1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
\|YGR282C\|	BGL2	cell wall organization and biogenesis -> cell organization and biogenesis	glucan 1\,3-beta-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	cell wall -> cell wall	ABF1, CIN5, SMP1
YLR293C	GSP1	nucleocytoplasmic transport, nuclear organization and biogenesis, rRNA processing -> transport, cell organization and biogenesis, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RAN small monomeric GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm, nucleus -> cytoplasm, nucleus	ABF1
\|YJL159W\|	HSP150	cell wall organization and biogenesis -> cell organization and biogenesis	structural constituent of cell wall -> structural molecule activity	cell wall -> cell wall	ACE2, HIR2, MCM1, RLM1, SWI5
\|YIR010W\|	DSN1	chromosome segregation -> cell proliferation		spindle pole -> cytoplasm	ABF1
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YDR172W	SUP35	translational termination -> biosynthesis, protein metabolism	translation release factor activity -> translation factor activity\, nucleic acid binding	cytosol -> cytoplasm	ABF1, ZMS1
YJL069C	UTP18				ABF1
\|YAL016W\|	TPD3	protein biosynthesis, actin filament organization, mitotic spindle checkpoint, bud growth, protein amino acid dephosphorylation -> biosynthesis, cell organization and biogenesis, asexual reproduction, phosphorus metabolism, cell proliferation, cell cycle, protein metabolism	protein phosphatase type 2A activity -> hydrolase activity\, acting on ester bonds	protein phosphatase type 2A complex, bud neck, nucleus, cytoplasm, shmoo tip, bud tip, spindle pole body -> protein phosphatase type 2A complex, nucleus, site of polarized growth (sensu Fungi), site of polarized growth (sensu Saccharomyces), cytoplasm, microtubule organizing center	ABF1
YKL014C	NO SYMBOL				ABF1
Main:		cell organization and biogenesis (0.43)	hydrolase activity\, acting on acid anhydrides (0.14)	cytoplasm (0.71)	ABF1 (0.67)
Score:		0.41	0.04	0.56	0.444
P-value:		4.310E-02 (nucleocytoplasmic transport)	4.505E-02 (protein carrier activity)	7.186E-02 (spindle pole)	5.760E-09 (ABF1)

ALPHA2(1) AND ndt80(MSE)(1) => SimExpr(YPR122W) : 5

STE12(1) AND PAC(1) => SimExpr(YJL069C) OR SimExpr(other) : 9 2

EXPR: (0.168) STE12 (P < 0.001) PAC (P < 0.388)

ORF	SYMBOL	P	F	C	TF
\|YKL142W\|	MRP8	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	mitochondrial ribosome -> cytoplasm, ribonucleoprotein complex	ACE2, CIN5, MBP1, PHO4, REB1, SKN7, STB1
YNL308C	KRI1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> nucleus
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YAL059W	ECM1	cell wall organization and biogenesis -> cell growth and/or maintenance			MOT3
YBR247C	ENP1	processing of 20S pre-rRNA, rRNA processing, cell growth and/or maintenance -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	nucleolus, nucleus -> nucleus
YMR310C	NO SYMBOL
YNL141W	AAH1	adenine catabolism -> aromatic compound metabolism, catabolism, heterocycle metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	adenine deaminase activity -> hydrolase activity\, acting on carbon-nitrogen (but not peptide) bonds		YFL044C
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, HIR1, RCS1
YJL069C	UTP18				ABF1
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell growth and/or maintenance, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> exosome (RNase complex), cytoplasm, nucleus	ZMS1
\|YMR302C\|	PRP12	mitochondrial genome maintenance, rRNA processing -> cell growth and/or maintenance, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	exonuclease activity -> hydrolase activity\, acting on ester bonds	mitochondrial inner membrane -> cytoplasm, inner membrane
Main:		cell growth and/or maintenance (0.75)	RNA binding (0.50)	nucleus (0.67)	ABF1 SKN7 (0.29)
Score:		0.68	0.27	0.67	0.095
P-value:		5.834E-04 (ribosome biogenesis)	1.622E-02 (snoRNA binding)	7.016E-02 (nucleolus)	7.800E-01 (SKN7)

SFF(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJL069C) OR SimExpr(other) : 34 3

EXPR: (0.128) SFF (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YML093W	UTP14	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YDR101C	ARX1	ribosomal large subunit biogenesis -> cell organization and biogenesis		nucleoplasm, cytoplasm -> nucleus, cytoplasm	IXR1, RFX1
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YDR496C	PUF6				RFX1
YGR145W	ENP2
YNR024W	NO SYMBOL
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation factor activity\, nucleic acid binding, RNA binding	ribosome, cytoplasm -> cytoplasm, ribonucleoprotein complex	PHD1
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YCR090C\|	NO SYMBOL
YOR359W	VTS1	protein-vacuolar targeting -> cell organization and biogenesis, protein metabolism, transport	intracellular transporter activity -> transporter activity	cytosol -> cytoplasm	RAP1
YCR016W	NO SYMBOL
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YCR072C	NO SYMBOL				YFL044C
YGL078C	DBP3	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, transport	protein carrier activity -> transporter activity	cytoplasm, nuclear pore -> cytoplasm, nucleus, integral to membrane, endomembrane system	MSN2
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> nucleus, nucleoplasm	ABF1, AZF1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
YKL014C	NO SYMBOL				ABF1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.61)	RNA binding (0.55)	nucleus (0.75)	ABF1 (0.23)
Score:		0.54	0.33	0.71	0.089
P-value:		3.849E-09 (rRNA processing)	1.399E-05 (snoRNA binding)	1.515E-11 (nucleolus)	1.000E+00

SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJL069C) OR SimExpr(other) : 40 4

EXPR: (0.133) SFF' (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.003)

ORF	SYMBOL	P	F	C	TF
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YNL132W	KRE33
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YDR101C	ARX1	ribosomal large subunit biogenesis -> cell organization and biogenesis		nucleoplasm, cytoplasm -> nucleus, cytoplasm	IXR1, RFX1
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
\|YIL122W\|	POG1	re-entry into mitotic cell cycle after pheromone arrest -> cell proliferation, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ASH1, CIN5, NRG1, RLM1, SMP1, YAP6
YGR145W	ENP2
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	USV1
YNL308C	KRI1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> nucleus
YNR024W	NO SYMBOL
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation factor activity\, nucleic acid binding, RNA binding	ribosome, cytoplasm -> cytoplasm, ribonucleoprotein complex	PHD1
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
\|YCR090C\|	NO SYMBOL
YOR359W	VTS1	protein-vacuolar targeting -> cell organization and biogenesis, protein metabolism, transport	intracellular transporter activity -> transporter activity	cytosol -> cytoplasm	RAP1
YCR016W	NO SYMBOL
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YCR072C	NO SYMBOL				YFL044C
YGL078C	DBP3	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
YKL056C	NO SYMBOL
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, transport	protein carrier activity -> transporter activity	cytoplasm, nuclear pore -> cytoplasm, nucleus, integral to membrane, endomembrane system	MSN2
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> nucleus, nucleoplasm	ABF1, AZF1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YOR095C	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
YKL014C	NO SYMBOL				ABF1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.61)	RNA binding (0.52)	nucleus (0.76)	ABF1 (0.28)
Score:		0.49	0.29	0.68	0.116
P-value:		5.964E-10 (ribosome biogenesis)	2.977E-05 (RNA helicase activity)	9.613E-13 (nucleolus)	3.780E-01 (ABF1)

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJL069C) OR SimExpr(other) : 23 1

ABF1(1) AND PAC(1) => SimExpr(YJL069C) : 16

mRRPE(1) AND STE12(1) AND PAC(1) => SimExpr(YJL069C) : 5

SFF(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YJL069C) : 11

EXPR: (0.107) SFF (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.011) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YHR052W	CIC1	protein catabolism -> macromolecule catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
YJL109C	UTP10	processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJL138C	TIF2	translational initiation, regulation of translational initiation -> macromolecule biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation factor activity\, nucleic acid binding, RNA binding	ribosome, cytoplasm -> cytoplasm, ribonucleoprotein complex	PHD1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YNL292W	PUS4	tRNA modification -> RNA metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cytoplasm organization and biogenesis, RNA metabolism, transcription		nucleolus -> nucleus
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YOR078W	BUD21	processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cytoplasm organization and biogenesis, RNA metabolism, transcription	RNA binding -> RNA binding	nucleolus -> nucleus
YLR249W	YEF3	translational elongation -> macromolecule biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		RNA metabolism (0.56)	RNA binding (0.50)	nucleus (0.67)	ABF1 (0.25)
Score:		0.36	0.25	0.78	0.036
P-value:		4.109E-03 (rRNA processing)	1.327E-02 (snoRNA binding)	3.536E-04 (nucleolus)	1.000E+00

SFF'(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YJL069C) : 13

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YJL069C) : 8

EXPR: (0.105) mRRPE (P < 0.000) PAC (P < 0.029) SCB (P < 0.000) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YJL109C	UTP10	processing of 20S pre-rRNA -> ribosome biogenesis, RNA processing, transcription from Pol I promoter	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YMR131C	RRB1	ribosome biogenesis -> ribosome biogenesis		nucleolus -> nucleus	FZF1, MATa1, RGT1
YJR070C	NO SYMBOL				GAT3, YAP5
YMR239C	RNT1	35S primary transcript processing -> ribosome biogenesis, RNA processing, transcription from Pol I promoter	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, RNA binding	nucleolus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YKL056C	NO SYMBOL
YJL069C	UTP18				ABF1
YLR249W	YEF3	translational elongation -> translational elongation	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		ribosome biogenesis (0.75)	RNA binding (0.67)	nucleus (0.75)	ABF1 (0.20)
Score:		0.50	0.33	0.67	0.000
P-value:		4.601E-02 (ribosome biogenesis)	5.529E-01 (RNA binding)	2.018E-02 (nucleolus)	1.000E+00

ALPHA1(1) AND SFF(1) AND PAC(1) => SimExpr(YNL163C) OR SimExpr(other) : 22 6

EXPR: (0.166) SFF (P < 0.000) PAC (P < 0.369) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> pore complex, intracellular, endomembrane system
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	HIR2, USV1
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
\|YBL066C\|	SEF1
YML005W	NO SYMBOL				USV1
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> intracellular	CUP9, MET4, RAP1
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YNL299W	TRF5	sister chromatid cohesion -> cell proliferation	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> intracellular
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> intracellular, endomembrane system	SWI5
YNL163C	RIA1	ribosome biogenesis -> cell organization and biogenesis	translation elongation factor activity -> nucleic acid binding	cytoplasm -> intracellular	FHL1, RAP1, YAP5
YCR072C	NO SYMBOL				YFL044C
YML108W	NO SYMBOL
YKL078W	DHR2	ribosome biogenesis -> cell organization and biogenesis	RNA helicase activity -> nucleic acid binding	nucleolus -> intracellular	ABF1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	ABF1, HIR1, RCS1
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> intracellular, endomembrane system	RAP1
YJL069C	UTP18				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		cell organization and biogenesis (0.56)	nucleic acid binding (0.67)	intracellular (0.94)	ABF1 RAP1 (0.20)
Score:		0.40	0.45	0.88	0.111
P-value:		6.177E-04 (ribosome biogenesis and assembly)	4.598E-02 (RNA helicase activity)	6.790E-06 (nucleolus)	1.000E+00

ALPHA2(1) AND PAC(1) => SimExpr(YML108W) OR SimExpr(other) : 15 5

ALPHA2(1) AND SFF'(1) AND PAC(1) => SimExpr(YML108W) OR SimExpr(other) : 9 3

EXPR: (0.173) ALPHA2 (P < 0.001) SFF' (P < 0.000) PAC (P < 0.109)

ORF	SYMBOL	P	F	C	TF
\|YHR027C\|	RPN1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	endopeptidase activity, receptor activity -> peptidase activity, receptor activity	proteasome regulatory particle (sensu Eukarya), endoplasmic reticulum, cytoplasm -> cytoplasm, nucleus
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNR046W	NO SYMBOL				ABF1
YML108W	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YNL023C	FAP1		transcription factor activity -> nucleic acid binding
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
\|YPL106C\|	SSE1	protein folding -> protein metabolism	co-chaperone activity -> co-chaperone activity	cytoplasm -> cytoplasm	HSF1, MSN4
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.44)	nucleic acid binding (0.67)	nucleus (0.67)	ABF1 (0.43)
Score:		0.42	0.42	0.67	0.190
P-value:		3.275E-02 (ribosome biogenesis and assembly)	5.023E-02 (nucleic acid binding)	9.619E-03 (nucleolus)	4.201E-01 (ABF1)

ALPHA1(1) AND ALPHA2(1) AND PAC(1) => SimExpr(YML108W) OR SimExpr(other) : 8 3

EXPR: (0.189) ALPHA2 (P < 0.001) PAC (P < 0.273) ALPHA1 (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, ribonucleoprotein complex, membrane
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
\|YOR284W\|	HUA2				RFX1, YAP6
\|YJR070C\|	NO SYMBOL				GAT3, YAP5
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, membrane	SWI5
YML108W	NO SYMBOL
YFL007W	BLM3			membrane -> membrane
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.57)	nucleic acid binding (0.67)	nucleus (0.57)	INO4 (0.29)
Score:		0.52	0.47	0.52	0.048
P-value:		2.492E-01 (ribosome biogenesis and assembly)	2.496E-01 (transferase activity\, transferring glycosyl groups)	7.796E-02 (nucleolus)	4.995E-01 (INO4)

ALPHA2(1) AND SFF(1) AND PAC(1) => SimExpr(YML108W) OR SimExpr(other) : 8 1

EXPR: (0.172) ALPHA2 (P < 0.001) SFF (P < 0.000) PAC (P < 0.141)

ORF	SYMBOL	P	F	C	TF
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> DNA replication and chromosome cycle, mitotic cell cycle, organelle organization and biogenesis, M phase, DNA metabolism, RNA processing, nuclear division	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
YJL033W	HCA4	35S primary transcript processing -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> phospholipid biosynthesis, protein biosynthesis, glycerophospholipid metabolism, protein modification, glycoprotein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YML108W	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent		nucleolus -> nucleus
YNL023C	FAP1		transcription factor activity -> nucleic acid binding
YLR222C	UTP13	processing of 20S pre-rRNA -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> ribosome biogenesis and assembly, conjugation with cellular fusion	rRNA binding -> nucleic acid binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		RNA processing (0.57)	nucleic acid binding (0.86)	nucleus (0.71)	ABF1 INO4 (0.40)
Score:		0.48	0.71	0.67	0.200
P-value:		9.276E-03 (ribosome biogenesis and assembly)	6.081E-03 (nucleic acid binding)	2.436E-03 (nucleolus)	2.088E-01 (INO4)

ALPHA1(1) AND ALPHA2(1) AND SFF'(1) AND PAC(1) => SimExpr(YML108W) OR SimExpr(other) : 6 1

EXPR: (0.179) ALPHA2 (P < 0.012) SFF' (P < 0.007) PAC (P < 0.240) ALPHA1 (P < 0.005)

ORF	SYMBOL	P	F	C	TF
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> DNA replication and chromosome cycle, mitotic cell cycle, organelle organization and biogenesis, M phase, DNA metabolism, RNA processing, nuclear division	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
YJL033W	HCA4	35S primary transcript processing -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> phospholipid biosynthesis, protein biosynthesis, glycerophospholipid metabolism, protein modification, glycoprotein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YML108W	NO SYMBOL
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent		nucleolus -> nucleus
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> ribosome biogenesis and assembly, conjugation with cellular fusion	rRNA binding -> nucleic acid binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		RNA processing (0.50)	nucleic acid binding (0.80)	nucleus (0.67)	INO4 (0.50)
Score:		0.40	0.60	0.60	0.167
P-value:		6.047E-02 (ribosome biogenesis and assembly)	6.394E-02 (RNA binding)	1.854E-02 (nucleolus)	1.265E-01 (INO4)

mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YJL109C) OR SimExpr(other) : 20 2

ALPHA1(1) AND SFF'(1) AND PAC(1) => SimExpr(YJL109C) OR SimExpr(other) : 25 10

EXPR: (0.193) SFF' (P < 0.000) PAC (P < 0.368) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
YHR088W	RPF1	processing of 27S pre-rRNA, ribosomal large subunit assembly and maintenance -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	rRNA primary transcript binding -> nucleic acid binding	nucleolus -> intracellular	FKH1
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> pore complex, intracellular, endomembrane system
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	HIR2, USV1
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
\|YBL066C\|	SEF1
\|YML005W\|	NO SYMBOL				USV1
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	USV1
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> intracellular	CUP9, MET4, RAP1
YLR073C	NO SYMBOL
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
\|YNL299W\|	TRF5	sister chromatid cohesion -> cell proliferation	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> intracellular
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> intracellular, endomembrane system	SWI5
YNL163C	RIA1	ribosome biogenesis -> cell organization and biogenesis	translation elongation factor activity -> nucleic acid binding	cytoplasm -> intracellular	FHL1, RAP1, YAP5
YBR292C	NO SYMBOL				STE12, ZMS1
\|YCR072C\|	NO SYMBOL				YFL044C
YKL056C	NO SYMBOL
\|YIR026C\|	YVH1	meiosis, sporulation (sensu Saccharomyces) -> cell proliferation, sporulation	protein tyrosine phosphatase activity -> hydrolase activity\, acting on ester bonds		DOT6, SUM1
YML108W	NO SYMBOL
YKL078W	DHR2	ribosome biogenesis -> cell organization and biogenesis	RNA helicase activity -> nucleic acid binding	nucleolus -> intracellular	ABF1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	ABF1, HIR1, RCS1
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> intracellular, endomembrane system	RAP1
YJL069C	UTP18				ABF1
YOR095C	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YGL189C	RPS26A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		cell organization and biogenesis (0.50)	nucleic acid binding (0.57)	intracellular (0.95)	RAP1 (0.28)
Score:		0.32	0.32	0.90	0.127
P-value:		1.105E-04 (ribosome biogenesis and assembly)	2.508E-04 (rRNA binding)	4.733E-07 (nucleolus)	1.234E-01 (RAP1)

ALPHA1(1) AND PAC(1) AND SCB(1) => SimExpr(YJL109C) OR SimExpr(other) : 18 3

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJL109C) OR SimExpr(other) : 21 3

mRRPE(1) AND SWI5(1) AND PAC(1) => SimExpr(YJL109C) OR SimExpr(other) : 13 4

ALPHA1(1) AND SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YJL109C) OR SimExpr(other) : 5 1

mRRPE(1) AND SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YJL109C) : 6

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YJL109C) : 8

ALPHA1(1) AND ALPHA1'(1) AND mRRPE(1) AND SWI5(1) AND SCB(1) => SimExpr(YDR472W) OR SimExpr(other) : 7 1

EXPR: (0.156) ALPHA1' (P < 0.001) mRRPE (P < 0.013) SWI5 (P < 0.001) SCB (P < 0.001) ALPHA1 (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YGR195W	SKI6	mRNA catabolism, 35S primary transcript processing -> catabolism, cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> exosome (RNase complex), cytoplasm, nucleus	HSF1
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YGR001C	NO SYMBOL
YDR472W	TRS31	ER to Golgi transport -> transport, vesicle-mediated transport		TRAPP -> cytoplasm	GCR1, IXR1, RFX1
\|YLR342W\|	FKS1	beta-1\,3 glucan biosynthesis, cell wall organization and biogenesis -> biosynthesis, cell organization and biogenesis, carbohydrate metabolism	1\,3-beta-glucan synthase activity -> transferase activity\, transferring glycosyl groups	actin cap (sensu Saccharomyces), 1\,3-beta-glucan synthase complex -> cell cortex, plasma membrane, cytoplasm	MBP1, RLM1, STB1, SWI4
Main:		cell organization and biogenesis (0.50)	RNA binding (0.33)	cytoplasm (0.67)	GCR2 (0.20)
Score:		0.40	0.07	0.53	0.000
P-value:		3.789E-01 (rRNA processing)	8.847E-01 (RNA binding)	1.459E+00 (ribonucleoprotein complex)	1.000E+00

ALPHA1(1) AND ALPHA1'(1) AND SFF'(1) AND mRRPE(1) AND SWI5(1) AND SCB(1) => SimExpr(YDR472W) : 5

EXPR: (0.131) ALPHA1' (P < 0.000) SFF' (P < 0.002) mRRPE (P < 0.012) SWI5 (P < 0.000) SCB (P < 0.001) ALPHA1 (P < 0.003)

ORF	SYMBOL	P	F	C	TF
YGR195W	SKI6	mRNA catabolism, 35S primary transcript processing -> mRNA catabolism, rRNA processing	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> exosome (RNase complex), cytoplasm, nucleus	HSF1
YJL109C	UTP10	processing of 20S pre-rRNA -> rRNA processing	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YNL111C	CYB5	sterol biosynthesis -> sterol biosynthesis	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YDR472W	TRS31	ER to Golgi transport -> ER to Golgi transport		TRAPP -> cytoplasm	GCR1, IXR1, RFX1
Main:		rRNA processing (0.50)	RNA binding (0.50)	cytoplasm (0.50)	GCR2 (0.33)
Score:		0.17	0.17	0.33	0.000
P-value:		1.352E-01 (rRNA processing)	3.647E-01 (RNA binding)	3.365E+00 (nucleus)	5.292E-01 (GCR1)

ALPHA1(1) AND ALPHA1'(1) AND SFF(1) AND mRRPE(1) AND SWI5(1) AND SCB(1) => SimExpr(YDR472W) : 5

EXPR: (0.131) ALPHA1' (P < 0.000) SFF (P < 0.001) mRRPE (P < 0.006) SWI5 (P < 0.001) SCB (P < 0.001) ALPHA1 (P < 0.001)

ORF	SYMBOL	P	F	C	TF
YGR195W	SKI6	mRNA catabolism, 35S primary transcript processing -> mRNA catabolism, rRNA processing	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, RNA binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> exosome (RNase complex), cytoplasm, nucleus	HSF1
YJL109C	UTP10	processing of 20S pre-rRNA -> rRNA processing	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YNL111C	CYB5	sterol biosynthesis -> sterol biosynthesis	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YDR472W	TRS31	ER to Golgi transport -> ER to Golgi transport		TRAPP -> cytoplasm	GCR1, IXR1, RFX1
Main:		rRNA processing (0.50)	RNA binding (0.50)	cytoplasm (0.50)	GCR2 (0.33)
Score:		0.17	0.17	0.33	0.000
P-value:		1.352E-01 (rRNA processing)	3.647E-01 (RNA binding)	3.365E+00 (nucleus)	5.292E-01 (GCR1)

PAC(1) => SimExpr(YKL078W) OR SimExpr(other) : 131 45

EXPR: (0.171) PAC (P < 0.499)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell growth and/or maintenance	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YLR197W	SIK1	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex, nucleus, nucleolus -> intracellular	DAL81, HAL9
\|YJL208C\|	NUC1	DNA recombination -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	endodeoxyribonuclease activity, exodeoxyribonuclease activity, ribonuclease activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	mitochondrial inner membrane -> intracellular, membrane
\|YFL011W\|	HXT10	hexose transport -> cell growth and/or maintenance	glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity -> transporter activity	plasma membrane -> membrane	GTS1, MBP1, RTG3
YPR031W	NTO1				MSN2, RCS1
YGL255W	ZRT1	high-affinity zinc ion transport -> cell growth and/or maintenance	high affinity zinc uptake transporter activity -> transporter activity	integral to plasma membrane -> membrane	GRF10(Pho2), ZAP1
YJR055W	HIT1	aerobic respiration -> energy pathways			STP2
YBR267W	NO SYMBOL
YPL043W	NOP4	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular
YPL266W	DIM1	rRNA modification, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA (adenine-N6\,N6-)-dimethyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleolus -> intracellular	ARG81, STP2
YGR272C	NO SYMBOL				REB1, STP2
YHR027C	RPN1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	endopeptidase activity, receptor activity -> peptidase activity, signal transducer activity	proteasome regulatory particle (sensu Eukarya), endoplasmic reticulum, cytoplasm -> intracellular
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding	nucleolus, proteasome complex (sensu Eukarya) -> intracellular	HAP4, MATa1
YNL132W	KRE33
YHR088W	RPF1	processing of 27S pre-rRNA, ribosomal large subunit assembly and maintenance -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	rRNA primary transcript binding -> nucleic acid binding	nucleolus -> intracellular	FKH1
YGR159C	NSR1	ribosomal small subunit assembly and maintenance, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	single-stranded DNA binding, RNA binding -> nucleic acid binding	nucleolus, nucleus -> intracellular
YOL041C	NOP12	rRNA metabolism -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular	GTS1, MET31
YML093W	UTP14	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, cell growth and/or maintenance	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> intracellular, membrane
YGL169W	SUA5	cell growth and/or maintenance -> cell growth and/or maintenance			ABF1
\|YHR083W\|	NO SYMBOL				DIG1, STE12
\|YFR017C\|	NO SYMBOL				ACE2, FKH2, IME4, MBP1, NDD1, NRG1, PDR1, RME1, SFP1, SKN7, SRD1, SWI4, SWI5
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell growth and/or maintenance	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YLR336C	SGD1	osmoregulation -> osmoregulation		nucleus -> intracellular
YNL207W	RIO2	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	nucleocytoplasmic transporter activity, protein kinase activity -> transporter activity, transferase activity\, transferring phosphorus-containing groups	cytosol, nucleus -> intracellular	ABF1, MAL33
YML043C	RRN11	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> intracellular	MAL13
YJL109C	UTP10	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
YDR101C	ARX1	ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleoplasm, cytoplasm -> intracellular	IXR1, RFX1
YHR089C	GAR1	rRNA modification, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	RNA binding -> nucleic acid binding	nucleolus, small nucleolar ribonucleoprotein complex -> intracellular	CBF1, FZF1
\|YLL027W\|	ISA1	iron ion transport -> cell growth and/or maintenance		mitochondrial matrix -> intracellular	HAP2, HAP3, HAP5, HSF1, YAP3
YJL033W	HCA4	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	HIR2, USV1
\|YPL149W\|	APG5	protein-vacuolar targeting, autophagy -> protein metabolism, cell growth and/or maintenance		cytosol -> intracellular
YDR161W	NO SYMBOL
YDR496C	PUF6				RFX1
YNL209W	SSB2	protein biosynthesis -> biosynthesis, protein metabolism	chaperone activity, ATPase activity -> chaperone activity, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	polysome, cytoplasm -> intracellular	ABF1, RFX1
\|YKL142W\|	MRP8	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	mitochondrial ribosome -> intracellular	ACE2, CIN5, MBP1, PHO4, REB1, SKN7, STB1
\|YIL122W\|	POG1	re-entry into mitotic cell cycle after pheromone arrest -> cell growth and/or maintenance, conjugation, perception of external stimulus, sexual reproduction, response to abiotic stimulus	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> intracellular	ASH1, CIN5, NRG1, RLM1, SMP1, YAP6
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups
\|YOR284W\|	HUA2				RFX1, YAP6
YMR131C	RRB1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> intracellular	FZF1, MATa1, RGT1
YDR365C	NO SYMBOL				ABF1, MSS11, YJL206C
YGR145W	ENP2
YNL175C	NOP13		RNA binding -> nucleic acid binding	nucleolus, nucleoplasm -> intracellular	INO2, INO4
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YIL066C	RNR3	DNA replication -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> intracellular	RFX1, STB1
\|YBR044C\|	TCM62	protein complex assembly -> protein metabolism	chaperone activity -> chaperone activity	mitochondrial inner membrane -> intracellular, membrane	GRF10(Pho2), MCM1
YIL096C	NO SYMBOL				GAT3, HAP2, MOT3, RTS2
YJR070C	NO SYMBOL				GAT3, YAP5
YHR170W	NMD3	ribosomal large subunit assembly and maintenance -> cell growth and/or maintenance	RNA binding, protein binding -> nucleic acid binding, protein binding	cytosol, cytosolic large ribosomal subunit (sensu Eukarya) -> intracellular	PHD1, REB1, SIP4
\|YBL066C\|	SEF1
YFR034C	PHO4	phosphate metabolism, cellular response to phosphate starvation -> phosphorus metabolism, response to extracellular stimulus, response to biotic stimulus	transcription factor activity -> nucleic acid binding	nucleus, cytoplasm -> intracellular
YJL050W	MTR4	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YML005W	NO SYMBOL				USV1
YBR034C	HMT1	peptidyl-arginine modification, mRNA-nucleus export -> protein metabolism, cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein-arginine N-methyltransferase activity -> transferase activity\, transferring one-carbon groups	nucleus -> intracellular
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	USV1
YKR092C	SRP40	nucleocytoplasmic transport -> cell growth and/or maintenance	chaperone activity -> chaperone activity	nucleolus -> intracellular	CUP9, MET4, RAP1
YNL308C	KRI1	ribosome biogenesis -> cell growth and/or maintenance		nucleolus -> intracellular
YGR162W	TIF4631	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> nucleic acid binding	ribosome -> intracellular	HSF1
YNR024W	NO SYMBOL
YJL138C	TIF2	translational initiation, regulation of translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> nucleic acid binding	ribosome, cytoplasm -> intracellular	PHD1
YMR239C	RNT1	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonuclease III activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nucleolus -> intracellular
\|YNL277W\|	MET2	methionine biosynthesis, homoserine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine O-acetyltransferase activity -> transferase activity\, transferring acyl groups	cytoplasm -> intracellular	CBF1, MET31, MET4, STE12
\|YPR149W\|	NCE102	protein secretion -> protein secretion		integral to membrane, endoplasmic reticulum, cytoplasm -> membrane, intracellular	CIN5, FKH2, GRF10(Pho2), HSF1, NDD1, PUT3, RAP1, SKN7, SWI4, YAP6
\|YHR146W\|	CRP1		DNA binding -> nucleic acid binding	nucleus -> intracellular	IXR1
YLR063W	NO SYMBOL				DAL81
YLR073C	NO SYMBOL
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> intracellular	STB1
\|YBL099W\|	ATP1	ATP synthesis coupled proton transport -> cell growth and/or maintenance	hydrogen-transporting ATP synthase activity -> transporter activity	proton-transporting ATP synthase\, catalytic core (sensu Eukarya) -> intracellular, membrane	HAP4, ROX1
YHR169W	DBP8	35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YNL299W	TRF5	sister chromatid cohesion -> cell growth and/or maintenance	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> intracellular
YGL171W	ROK1	35S primary transcript processing, mRNA splicing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity, ATPase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	RGT1
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YPL068C	NO SYMBOL				CBF1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell growth and/or maintenance	mRNA binding -> nucleic acid binding	nucleus -> intracellular	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> intracellular
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> intracellular, membrane	SWI5
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> intracellular	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell growth and/or maintenance		nucleus -> intracellular
YMR049C	ERB1	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
\|YHL017W\|	NO SYMBOL				SIP4
\|YNL285W\|	NO SYMBOL				MCM1, MOT3
YNL112W	DBP2		RNA helicase activity -> nucleic acid binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
\|YCR090C\|	NO SYMBOL
YOR048C	RAT1	35S primary transcript processing, RNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	5'-3' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nucleus -> intracellular	REB1, STE12
\|YGR191W\|	HIP1	manganese ion transport, histidine transport -> cell growth and/or maintenance	histidine transporter activity -> transporter activity	plasma membrane -> membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleus, nucleolus -> intracellular	LEU3, PUT3, REB1
YOR359W	VTS1	protein-vacuolar targeting -> protein metabolism, cell growth and/or maintenance	intracellular transporter activity -> transporter activity	cytosol -> intracellular	RAP1
\|YGR178C\|	PBP1	mRNA polyadenylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		cytoplasm, nucleus -> intracellular	CIN5, DOT6, MSS11
YCR016W	NO SYMBOL
YNL163C	RIA1	ribosome biogenesis -> cell growth and/or maintenance	translation elongation factor activity -> nucleic acid binding	cytoplasm -> intracellular	FHL1, RAP1, YAP5
YBR292C	NO SYMBOL				STE12, ZMS1
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YCR072C	NO SYMBOL				YFL044C
\|YIL099W\|	SGA1	sporulation (sensu Saccharomyces) -> cell growth and/or maintenance	glucan 1\,4-alpha-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	vacuole (sensu Fungi) -> intracellular	ASH1, CIN5, CUP9, MOT3, NRG1, PHD1, ROX1, SKN7, SOK2, YAP6
YDR527W	NO SYMBOL				ABF1, SKN7
YGL078C	DBP3	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
YKL056C	NO SYMBOL
YMR185W	NO SYMBOL
YGL016W	KAP122	protein-nucleus import, response to drug -> response to abiotic stimulus, protein metabolism, cell growth and/or maintenance	protein carrier activity -> protein binding	cytoplasm, nuclear pore -> intracellular, membrane	MSN2
YKL172W	EBP2	rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular	ABF1, FZF1, RFX1
YLR002C	NOC3	DNA replication initiation, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	chromatin binding, protein binding -> nucleic acid binding, protein binding	nucleus, nucleolus -> intracellular	HIR1, IXR1, RCS1
YIR026C	YVH1	meiosis, sporulation (sensu Saccharomyces) -> cell growth and/or maintenance	protein tyrosine phosphatase activity -> hydrolase activity\, acting on ester bonds		DOT6, SUM1
YML108W	NO SYMBOL
YAL059W	ECM1	cell wall organization and biogenesis -> cell growth and/or maintenance			MOT3
\|YOL054W\|	PSH1	RNA elongation from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism
YMR014W	BUD22	bud site selection -> cell growth and/or maintenance		nucleus -> intracellular	CUP9, HAL9, HIR2, LEU3, NDD1, RLM1, ROX1, SMP1, YAP6
YBR247C	ENP1	processing of 20S pre-rRNA, rRNA processing, cell growth and/or maintenance -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	nucleolus, nucleus -> intracellular
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
YLR221C	RSA3
YBR104W	YMC2	transport -> cell growth and/or maintenance	transporter activity -> transporter activity	mitochondrial inner membrane -> intracellular, membrane	FKH1, FKH2
YFL007W	BLM3			membrane -> membrane
YMR310C	NO SYMBOL
YKL078W	DHR2	ribosome biogenesis -> cell growth and/or maintenance	RNA helicase activity -> nucleic acid binding	nucleolus -> intracellular	ABF1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
YJL148W	RPA34	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex, nucleus, nucleolus -> intracellular	AZF1, CHA4, CUP9, DAL81, DIG1, FZF1, GCR1, GCR2, GLN3, HAL9, HAP2, HAP3, HMS1, LEU3, MAC1, MBP1, MET31, MOT3, NDD1, PDR1, PHD1, REB1, RLM1, RME1, ROX1, RPH1, RTS2, SKN7, SWI5, YAP6, ZAP1
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> intracellular	ROX1, SIG1
YGL079W	NO SYMBOL				PHO4, STP1
YDR384C	ATO3	transport, nitrogen utilization -> cell growth and/or maintenance, nitrogen metabolism	transporter activity -> transporter activity	membrane -> membrane	ABF1, FHL1, INO4
\|YDR184C\|	ATC1	response to stress, polar budding -> response to stress, asexual reproduction		nucleus -> intracellular	ARO80, GLN3, SIP4, SKO1
YNL141W	AAH1	adenine catabolism -> aromatic compound metabolism, catabolism, heterocycle metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	adenine deaminase activity -> hydrolase activity\, acting on carbon-nitrogen (but not peptide) bonds		YFL044C
YNL023C	FAP1		transcription factor activity -> nucleic acid binding
YPR144C	NOC4	ribosome biogenesis -> cell growth and/or maintenance		nucleus -> intracellular	HIR1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> intracellular	ABF1, SWI6
\|YDR017C\|	KCS1	vacuole organization and biogenesis, response to stress -> cell growth and/or maintenance, response to stress	inositol/phosphatidylinositol kinase activity -> transferase activity\, transferring phosphorus-containing groups
\|YCL049C\|	NO SYMBOL				SUM1
\|YBR069C\|	TAT1	amino acid transport -> cell growth and/or maintenance	amino acid transporter activity -> transporter activity	plasma membrane -> membrane	CIN5, DAL81, PHD1, SWI4
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	ABF1, HIR1, RCS1
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> cell growth and/or maintenance	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> membrane	CIN5, PDR1, YAP6
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> intracellular	ABF1, AZF1
\|YIR035C\|	NO SYMBOL				YAP6
\|YJL166W\|	QCR8	aerobic respiration, oxidative phosphorylation\, ubiquinone to cytochrome c -> energy pathways, electron transport, phosphorus metabolism	ubiquinol-cytochrome c reductase activity -> oxidoreductase activity\, acting on diphenols and related substances as donors, transporter activity	respiratory chain complex III (sensu Eukarya) -> intracellular, membrane
YIL026C	IRR1	mitotic sister chromatid cohesion, colony morphology, germination (sensu Saccharomyces), cytogamy -> plasma membrane fusion, cell growth and/or maintenance, conjugation, sexual reproduction	protein binding -> protein binding	nuclear cohesin complex -> intracellular	ABF1, MAL33, MBP1, SWI6
\|YDR076W\|	RAD55	meiotic DNA recombinase assembly, DNA recombinase assembly, double-strand break repair via synthesis-dependent strand annealing, double-strand break repair via break-induced replication, double-strand break repair via single-strand annealing -> mating-type determination, cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein binding -> protein binding	nucleus -> intracellular	DAL81
YOR021C	NO SYMBOL				ARG80, GCR2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YMR290C	HAS1			nucleolus, nuclear membrane -> intracellular, membrane	RAP1
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> membrane	CBF1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1, MSS11, SIG1, SKO1
YJL069C	UTP18				ABF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
\|YGR126W\|	NO SYMBOL				CHA4, GTS1, SWI6
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> nucleic acid binding	nucleolus, nucleolus organizer complex -> intracellular	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular
YNL110C	NOP15	ribosomal large subunit biogenesis -> cell growth and/or maintenance		nucleus, nucleolus -> intracellular
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
\|YMR153W\|	NUP53	protein-nucleus import\, docking, mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear pore organization and biogenesis -> protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, cell growth and/or maintenance	structural molecule activity -> structural molecule activity	nuclear pore -> intracellular, membrane
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	MATa1, RCS1, RTG3, SWI5
\|YKL145W\|	RPT1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	ATPase activity, endopeptidase activity -> purine nucleotide binding, peptidase activity, hydrolase activity\, acting on acid anhydrides	proteasome regulatory particle (sensu Eukarya) -> intracellular	REB1
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell growth and/or maintenance, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> intracellular	ZMS1
\|YMR302C\|	PRP12	mitochondrial genome maintenance, rRNA processing -> cell growth and/or maintenance, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	exonuclease activity -> hydrolase activity\, acting on ester bonds	mitochondrial inner membrane -> intracellular, membrane
YKL014C	NO SYMBOL				ABF1
YML123C	PHO84	phosphate transport -> cell growth and/or maintenance	inorganic phosphate transporter activity -> transporter activity	integral to plasma membrane -> membrane	HIR2
YLR222C	UTP13	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1
YGL189C	RPS26A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	cytosolic small ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
YPL143W	RPL33A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural molecule activity	cytosolic large ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, MET4, NDD1, PDR1, RAP1, RME1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YHR196W	UTP9	processing of 20S pre-rRNA -> cell growth and/or maintenance, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, nucleolus, nucleus -> intracellular
YDR361C	BCP1				ABF1, ARO80, GLN3, HAP5, IXR1, YAP1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell growth and/or maintenance, conjugation, sexual reproduction	rRNA binding -> nucleic acid binding	nucleolus -> intracellular	ABF1, FKH2, INO4, RAP1
YKL120W	OAC1	oxaloacetate transport, sulfate transport -> cell growth and/or maintenance	oxaloacetate carrier activity, sulfate porter activity -> transporter activity	mitochondrial inner membrane -> intracellular, membrane	LEU3, MTH1
YGL099W	LSG1	conjugation with cellular fusion, sporulation (sensu Saccharomyces), ribosome nucleus export -> conjugation, protein metabolism, cell growth and/or maintenance, sexual reproduction	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm -> intracellular	PHO4
YGL092W	NUP145	tRNA splicing, mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, protein-nucleus import, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear pore organization and biogenesis -> protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, cell growth and/or maintenance	structural molecule activity -> structural molecule activity	nuclear pore -> intracellular, membrane	FKH1
\|YOL141W\|	PPM2		C-terminal protein carboxyl methyltransferase activity -> transferase activity\, transferring one-carbon groups		ARG81, SRD1
\|YPL165C\|	SET6				CIN5
YJL010C	NO SYMBOL
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> chaperone activity	cytoplasm -> intracellular	HSF1, MSN4
\|YMR196W\|	NO SYMBOL
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> nucleic acid binding	ribosome -> intracellular	INO2, INO4
Main:		cell growth and/or maintenance (0.70)	nucleic acid binding (0.44)	intracellular (0.91)	ABF1 (0.16)
Score:		0.60	0.23	0.85	0.094
P-value:		2.221E-29 (ribosome biogenesis)	1.346E-07 (snoRNA binding)	1.748E-29 (nucleolus)	1.000E+00

ALPHA1(1) AND PAC(1) => SimExpr(YKL078W) OR SimExpr(other) : 45 14

ABF1(1) AND PAC(1) => SimExpr(YKL078W) : 16

mRRPE(1) AND ALPHA2'(1) => SimExpr(YBL092W) OR SimExpr(other) : 11 4

EXPR: (0.198) mRRPE (P < 0.049) ALPHA2' (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YOL091W\|	SPO21	spore wall assembly (sensu Saccharomyces), meiosis -> cell proliferation, sporulation	structural molecule activity -> structural molecule activity	spindle pole body -> cytoplasm	HAP5, SUM1
\|YNL122C\|	NO SYMBOL				ARO80
\|YFR009W\|	GCN20	regulation of translational elongation -> biosynthesis, protein metabolism		cytosol, cytosolic ribosome (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex
YJR025C	BNA1	nicotinamide adenine dinucleotide biosynthesis -> coenzymes and prosthetic group metabolism, biosynthesis, water-soluble vitamin metabolism, vitamin metabolism	3-hydroxyanthranilate 3\,4-dioxygenase activity -> 3-hydroxyanthranilate 3\,4-dioxygenase activity	cytoplasm -> cytoplasm	GCN4, SUM1, SWI6
YLR022C	NO SYMBOL				USV1
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> hypoxanthine phosphoribosyltransferase activity
YPR117W	NO SYMBOL				IME4, MBP1, SFP1
YLR175W	CBF5	rRNA modification, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	pseudouridylate synthase activity -> pseudouridylate synthase activity	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	AZF1, HAL9
YGR094W	VAS1	valyl-tRNA aminoacylation -> biosynthesis, protein metabolism	valine-tRNA ligase activity -> valine-tRNA ligase activity	cytoplasm, mitochondrion -> cytoplasm	SIG1
YLR355C	ILV5	branched chain family amino acid biosynthesis, mitochondrial genome maintenance -> amine metabolism, cell organization and biogenesis, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	ketol-acid reductoisomerase activity -> ketol-acid reductoisomerase activity	mitochondrion -> cytoplasm	GCN4, MET4
\|YOR295W\|	UAF30	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity, ribosomal DNA (rDNA) binding -> RNA polymerase I transcription factor activity, ribosomal DNA (rDNA) binding	RNA polymerase I upstream activating factor complex -> nucleus
YBL092W	RPL32	protein biosynthesis -> biosynthesis, protein metabolism	structural molecule activity -> structural molecule activity	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YOR095C	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> ribose-5-phosphate isomerase activity		FHL1, FKH2, RAP1
YGR001C	NO SYMBOL
YDR119W	NO SYMBOL				MSS11, SIG1, SKO1
Main:		biosynthesis (0.60)	structural molecule activity (0.22)	cytoplasm (0.75)	SUM1 RAP1 FHL1 SIG1 GCN4 (0.18)
Score:		0.44	0.03	0.64	0.073
P-value:		2.312E-01 (pyridine nucleotide metabolism)	1.712E+00 (oxidoreductase activity)	1.398E+00 (nucleolus)	2.613E-01 (SIG1)

ALPHA1(1) AND mRRPE(1) AND ALPHA2'(1) => SimExpr(YBL092W) : 6

mRRPE(1) AND MCM1'(1) AND ALPHA2'(1) => SimExpr(YBL092W) : 6

ALPHA2(1) AND ndt80(MSE)(1) => SimExpr(YBR115C) : 5

mRRPE(1) AND MCM1'(1) AND ALPHA2'(1) => SimExpr(YGR001C) OR SimExpr(other) : 5 1

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND SWI5(1) AND SCB(1) => SimExpr(YGR001C) OR SimExpr(other) : 6 1

ALPHA1(1) AND ALPHA2(1) AND SWI5(1) AND MCM1'(1) AND SCB(1) => SimExpr(YGR001C) : 5

EXPR: (0.117) ALPHA2 (P < 0.000) SWI5 (P < 0.000) MCM1' (P < 0.000) SCB (P < 0.001) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YIL035C	CKA1	flocculation, protein amino acid phosphorylation, cell ion homeostasis, G1/S transition of mitotic cell cycle, G2/M transition of mitotic cell cycle, establishment of cell polarity (sensu Saccharomyces), regulation of transcription from Pol I promoter, regulation of transcription from Pol III promoter, response to DNA damage -> flocculation, protein amino acid phosphorylation, cell ion homeostasis, G1/S transition of mitotic cell cycle, G2/M transition of mitotic cell cycle, establishment of cell polarity (sensu Saccharomyces), regulation of transcription from Pol I promoter, regulation of transcription from Pol III promoter, response to DNA damage	protein kinase CK2 activity -> protein kinase CK2 activity	protein kinase CK2 complex -> protein kinase CK2 complex	ABF1
YHR046C	INM1	myo-inositol metabolism -> myo-inositol metabolism	myo-inositol-1(or 4)-monophosphatase activity -> myo-inositol-1(or 4)-monophosphatase activity
YPR195C	NO SYMBOL				FKH1, FKH2, HIR1, HIR2, INO4, RLM1
YKL209C	STE6	peptide pheromone export -> peptide pheromone export	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> integral to plasma membrane, shmoo tip	MCM1, STE12
YGR001C	NO SYMBOL
Main:		myo-inositol metabolism (0.33)	protein kinase CK2 activity (0.33)	integral to plasma membrane (0.50)	ABF1 (0.33)
Score:		0.00	0.00	0.00	0.000
P-value:		5.103E+00 (cell growth and/or maintenance)	9.768E-01 (hydrolase activity)	2.000E+00	6.404E-01 (HIR2)

ALPHA1'(1) AND SWI5(1) AND PAC(1) => SimExpr(YOR294W) OR SimExpr(other) : 14 6

EXPR: (0.181) ALPHA1' (P < 0.001) SWI5 (P < 0.000) PAC (P < 0.739)

ORF	SYMBOL	P	F	C	TF
\|YFL011W\|	HXT10	hexose transport -> transport	glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity -> hexose transporter activity	plasma membrane -> plasma membrane	GTS1, MBP1, RTG3
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> cytoplasm	RFX1, STB1
YNR024W	NO SYMBOL
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> nucleus	STB1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell organization and biogenesis	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
YBR292C	NO SYMBOL				STE12, ZMS1
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YPL143W	RPL33A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, MET4, NDD1, PDR1, RAP1, RME1
YKL120W	OAC1	oxaloacetate transport, sulfate transport -> transport	oxaloacetate carrier activity, sulfate porter activity -> electrochemical potential-driven transporter activity, anion transporter activity, organic cation transporter activity, carboxylic acid transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	LEU3, MTH1
Main:		cell organization and biogenesis (0.50)	RNA binding (0.36)	nucleus (0.57)	RLM1 MTH1 RAP1 SKN7 STB1 PHD1 LEU3 FHL1 MBP1 MSN4 SWI6 GTS1 (0.12)
Score:		0.38	0.11	0.41	0.083
P-value:		1.048E-03 (transcription from Pol I promoter)	4.467E-02 (snoRNA binding)	8.984E-03 (nucleolus)	7.332E-01 (LEU3)

ALPHA1(1) AND LYS14(1) AND mRRPE(1) => SimExpr(YGR240C) OR SimExpr(other) : 9 4

EXPR: (0.205) LYS14 (P < 0.000) mRRPE (P < 0.049) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YMR277W	FCP1	protein amino acid dephosphorylation, transcription -> phosphorus metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	protein phosphatase activity, phosphoric monoester hydrolase activity -> hydrolase activity\, acting on ester bonds	nucleus -> nucleus
\|YNL042W\|	BOP3				DAL82
YJR070C	NO SYMBOL				GAT3, YAP5
\|YPL128C\|	TBF1	loss of chromatin silencing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	DNA binding, transcription factor activity -> DNA binding	nuclear chromosome\, telomeric region, nuclear chromosome, nucleus -> chromosome, nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YMR042W\|	ARG80	positive regulation of transcription from Pol II promoter, arginine metabolism -> amine metabolism, nitrogen metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, amino acid and derivative metabolism, organic acid metabolism	DNA binding, specific RNA polymerase II transcription factor activity -> DNA binding, specific RNA polymerase II transcription factor activity	nucleus -> nucleus	RME1
YGR240C	PFK1	glycolysis -> carbohydrate metabolism, alcohol metabolism, carbohydrate catabolism, energy pathways, catabolism	6-phosphofructokinase activity -> carbohydrate kinase activity, transferase activity\, transferring phosphorus-containing groups	6-phosphofructokinase complex, cytoplasm -> cytoplasm	GCR1, HIR1, HIR2
\|YLR328W\|	NMA1	nicotinamide adenine dinucleotide metabolism -> coenzymes and prosthetic group metabolism, vitamin metabolism	nicotinamide-nucleotide adenylyltransferase activity -> transferase activity\, transferring phosphorus-containing groups		CIN5, MSN1, ROX1
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YNL102W	POL1	DNA replication\, priming, DNA replication initiation, lagging strand elongation, DNA repair synthesis -> DNA metabolism, cell proliferation	alpha DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	alpha DNA polymerase\:primase complex -> nucleus	LEU3, MBP1
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YPL032C	SVL3	endocytosis -> transport			FKH1, HSF1
YBL092W	RPL32	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.44)	transferase activity\, transferring phosphorus-containing groups (0.38)	nucleus (0.71)	RAP1 CIN5 HIR1 (0.18)
Score:		0.22	0.14	0.52	0.055
P-value:		2.612E+00 (regulation of transcription\, DNA-dependent)	1.868E-01 (nucleotidyltransferase activity)	3.063E+00 (cytosol)	4.268E-01 (HIR1)

LYS14(1) AND mRRPE(1) AND SWI5(1) => SimExpr(YGR240C) OR SimExpr(other) : 7 2

EXPR: (0.200) LYS14 (P < 0.000) mRRPE (P < 0.070) SWI5 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YPR074C	TKL1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transketolase activity	cytoplasm -> cytoplasm	REB1
YKL018W	SWD2	histone methylation -> cell organization and biogenesis, protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	histone-lysine N-methyltransferase activity -> histone-lysine N-methyltransferase activity	nucleus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YGR240C	PFK1	glycolysis -> carbohydrate metabolism, alcohol metabolism, carbohydrate catabolism, energy pathways, catabolism	6-phosphofructokinase activity -> 6-phosphofructokinase activity	6-phosphofructokinase complex, cytoplasm -> cytoplasm	GCR1, HIR1, HIR2
\|YKL109W\|	HAP4	transcription, regulation of carbohydrate metabolism -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, carbohydrate metabolism, energy pathways, regulation of metabolism	transcriptional activator activity -> transcriptional activator activity	CCAAT-binding factor complex -> nucleus	ASH1, PHD1, SKN7, SWI4, YAP6
YOR063W	RPL3	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	GRF10(Pho2)
\|YJR129C\|	NO SYMBOL				DOT6, SIP4
YPL032C	SVL3	endocytosis -> transport			FKH1, HSF1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
Main:		cell organization and biogenesis (0.43)	6-phosphofructokinase activity (0.17)	cytoplasm (0.50)	HIR1 (0.29)
Score:		0.38	0.00	0.40	0.048
P-value:		9.305E-02 (glucose catabolism)	6.615E-01 (transferase activity)	1.871E+00 (cytosol)	1.855E-01 (HIR1)

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YMR239C) OR SimExpr(other) : 23 1

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YMR239C) : 8

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND mRRPE(1) => SimExpr(YDR023W) OR SimExpr(other) : 9 3

EXPR: (0.177) ALPHA2 (P < 0.000) ALPHA1' (P < 0.002) mRRPE (P < 0.062) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YPL193W\|	RSA1	ribosomal large subunit assembly and maintenance -> cell organization and biogenesis		nucleoplasm -> nucleus
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YJR070C	NO SYMBOL				GAT3, YAP5
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YBR048W	RPS11B	protein biosynthesis, ribosomal small subunit assembly and maintenance, regulation of translational fidelity -> cell organization and biogenesis, biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> eukaryotic 48S initiation complex, cytoplasm, ribonucleoprotein complex	GAL4, HAP4, LEU3, MET31, MSN1
YNR054C	NO SYMBOL				HAP3, HAP5, IXR1, MCM1, RTG3, SFP1, SWI6
\|YBR294W\|	SUL1	sulfate transport -> transport	sulfate transporter activity -> anion transporter activity	plasma membrane -> plasma membrane	STB1
YDR023W	SES1	amino acid activation -> biosynthesis, protein metabolism	serine-tRNA ligase activity -> ligase activity\, forming carbon-oxygen bonds, ligase activity\, forming phosphoric ester bonds	cytoplasm -> cytoplasm	GRF10(Pho2), MOT3
YGR001C	NO SYMBOL
Main:		biosynthesis (0.56)	transferase activity\, transferring glycosyl groups (0.29)	cytoplasm (0.38)	GCR2 (0.11)
Score:		0.50	0.05	0.21	0.000
P-value:		3.899E-02 (ribosome biogenesis and assembly)	2.210E-01 (transferase activity\, transferring glycosyl groups)	6.317E-01 (nucleolus)	1.000E+00

ALPHA2(1) AND PAC(1) => SimExpr(YHR128W) OR SimExpr(other) : 18 2

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YHR128W) OR SimExpr(other) : 22 2

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YHR128W) : 9

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YJL033W) OR SimExpr(other) : 5 1

EXPR: (0.167) ALPHA2 (P < 0.000) ALPHA1' (P < 0.003) PAC (P < 0.265) ALPHA1 (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YJR070C	NO SYMBOL				GAT3, YAP5
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.80)	nucleic acid binding (0.50)	nucleus (0.75)	HIR2 (0.25)
Score:		0.70	0.33	0.67	0.000
P-value:		8.095E-02 (RNA processing)	7.391E-02 (transferase activity\, transferring glycosyl groups)	1.673E-01 (nucleolus)	4.383E-01 (USV1)

ALPHA1(1) AND SWI5(1) AND PAC(1) => SimExpr(YDR312W) OR SimExpr(other) : 13 5

EXPR: (0.188) SWI5 (P < 0.000) PAC (P < 0.689) ALPHA1 (P < 0.000)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YKR092C	SRP40	nucleocytoplasmic transport -> transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
YOR294W	RRS1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleus -> nucleus	STB1
YNL299W	TRF5	sister chromatid cohesion -> cell proliferation	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YFR001W	LOC1	ribosomal large subunit biogenesis -> cell organization and biogenesis	mRNA binding -> RNA binding	nucleus -> nucleus	ARG80, GAL4, GTS1, HAP4, HIR1, LEU3, MSN2, MSN4, RCS1, RLM1, SWI4
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
YJR002W	MPP10	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex, nucleolus, nucleus -> nucleus, ribonucleoprotein complex
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YBR292C	NO SYMBOL				STE12, ZMS1
YBR069C	TAT1	amino acid transport -> transport	amino acid transporter activity -> carboxylic acid transporter activity	plasma membrane -> plasma membrane	CIN5, DAL81, PHD1, SWI4
YMR229C	RRP5	rRNA processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding, snoRNA binding -> RNA binding	nucleolus, nucleolus organizer complex -> nucleus	FHL1, RAP1
\|YKL145W\|	RPT1	ubiquitin-dependent protein catabolism -> catabolism, protein metabolism	ATPase activity, endopeptidase activity -> purine nucleotide binding, peptidase activity, hydrolase activity\, acting on acid anhydrides	proteasome regulatory particle (sensu Eukarya) -> cytoplasm, nucleus	REB1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		cell organization and biogenesis (0.50)	RNA binding (0.40)	nucleus (0.75)	RAP1 PHD1 (0.20)
Score:		0.29	0.13	0.62	0.105
P-value:		2.185E-03 (ribosome biogenesis and assembly)	3.216E-02 (snoRNA binding)	5.281E-03 (nucleolus)	6.479E-01 (MSN4)

ALPHA2(1) AND PAC(1) => SimExpr(YDR312W) OR SimExpr(other) : 18 2

ALPHA1(1) AND SFF'(1) AND SWI5(1) AND PAC(1) => SimExpr(YDR312W) OR SimExpr(other) : 7 3

EXPR: (0.193) SFF' (P < 0.009) SWI5 (P < 0.004) PAC (P < 0.710) ALPHA1 (P < 0.005)

ORF	SYMBOL	P	F	C	TF
YJL109C	UTP10	processing of 20S pre-rRNA -> ribosome biogenesis and assembly, RNA processing, transcription\, DNA-dependent	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YKR092C	SRP40	nucleocytoplasmic transport -> nucleocytoplasmic transport	chaperone activity -> chaperone activity	nucleolus -> nucleus	CUP9, MET4, RAP1
YNL299W	TRF5	sister chromatid cohesion -> DNA replication and chromosome cycle	DNA-directed DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> nucleus
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> phospholipid biosynthesis, protein biosynthesis, glycerophospholipid metabolism, protein modification, glycoprotein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YBR292C	NO SYMBOL				STE12, ZMS1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> ribosome biogenesis and assembly, conjugation with cellular fusion	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
YLR249W	YEF3	translational elongation -> protein biosynthesis	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		protein biosynthesis (0.33)	RNA binding (0.33)	nucleus (0.67)	SKN7 RAP1 INO4 PHD1 (0.25)
Score:		0.13	0.07	0.53	0.107
P-value:		9.626E-01 (ribosome biogenesis and assembly)	1.132E+00 (RNA binding)	4.667E-02 (nucleolus)	6.405E-01 (INO4)

ABF1(1) AND PAC(1) => SimExpr(YDR312W) : 16

ALPHA2(1) AND PAC(1) AND SCB(1) => SimExpr(YDR312W) : 8

ALPHA1(1) AND LYS14(1) AND mRRPE(1) => SimExpr(YPL032C) OR SimExpr(other) : 9 4

ALPHA1(1) AND LYS14(1) AND mRRPE(1) => SimExpr(YNL102W) OR SimExpr(other) : 9 4

ALPHA1(1) AND SFF(1) AND PAC(1) => SimExpr(YNL299W) OR SimExpr(other) : 21 7

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YKL056C) OR SimExpr(other) : 18 6

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YKL056C) : 8

ALPHA2(1) AND PAC(1) => SimExpr(YDR364C) OR SimExpr(other) : 18 2

ALPHA2(1) AND PAC(1) AND SCB(1) => SimExpr(YDR364C) : 8

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND MCM1'(1) AND SCB(1) => SimExpr(YPR195C) OR SimExpr(other) : 6 2

ALPHA1(1) AND ALPHA2(1) AND SWI5(1) AND SCB(1) => SimExpr(YPR195C) OR SimExpr(other) : 12 2

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND SFF(1) AND SCB(1) => SimExpr(YPR195C) OR SimExpr(other) : 7 3

EXPR: (0.196) ALPHA2 (P < 0.006) ALPHA1' (P < 0.007) SFF (P < 0.007) SCB (P < 0.015) ALPHA1 (P < 0.009)

ORF	SYMBOL	P	F	C	TF
YLR272C	YCS4	mitotic chromosome condensation -> cell proliferation, cell cycle		nuclear condensin complex -> chromosome, nucleus
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> nucleus, pore complex, ribonucleoprotein complex, endomembrane system
\|YNL230C\|	ELA1	RNA elongation from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	transcriptional elongation regulator activity -> transcriptional elongation regulator activity	transcription elongation factor complex -> nucleus	PHO4, RCS1, YAP1
YBR115C	LYS2	lysine biosynthesis\, aminoadipic pathway -> amine metabolism, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	aminoadipate-semialdehyde dehydrogenase activity -> aminoadipate-semialdehyde dehydrogenase activity	cytoplasm -> cytoplasm	DAL81, GCN4
YPR195C	NO SYMBOL				FKH1, FKH2, HIR1, HIR2, INO4, RLM1
YKL209C	STE6	peptide pheromone export -> transport	ATP-binding cassette (ABC) transporter activity -> ATP-binding cassette (ABC) transporter activity	integral to plasma membrane, shmoo tip -> integral to membrane, site of polarized growth (sensu Fungi), plasma membrane	MCM1, STE12
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YLR321C\|	SFH1	chromatin modeling -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein binding -> protein binding	nucleosome remodeling complex -> nucleus
YIL034C	CAP2	endocytosis, response to osmotic stress, actin filament organization, cell wall organization and biogenesis -> transport, response to abiotic stimulus, cell organization and biogenesis	protein binding -> protein binding	actin cortical patch (sensu Saccharomyces), actin capping protein complex -> cell cortex, cytoplasm
\|YKL167C\|	MRP49	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	mitochondrial large ribosomal subunit -> cytoplasm, ribonucleoprotein complex	ABF1, IME4, IXR1
Main:		biosynthesis (0.33)	protein binding (0.25)	nucleus (0.44)	ABF1 (0.33)
Score:		0.25	0.04	0.28	0.067
P-value:		7.408E-01 (mitosis)	8.014E-01 (protein binding)	8.554E-01 (integral to membrane)	1.000E+00

ALPHA1(1) AND ALPHA2(1) AND SWI5(1) AND MCM1'(1) AND SCB(1) => SimExpr(YPR195C) : 5

ABF1(1) AND PAC(1) => SimExpr(YDR527W) OR SimExpr(other) : 13 3

ABF1(1) AND PAC(1) AND SCB(1) => SimExpr(YDR527W) : 6

EXPR: (0.101) ABF1 (P < 0.001) PAC (P < 0.027) SCB (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YLR197W	SIK1	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> RNA processing, ribosome biogenesis and assembly, rRNA metabolism, transcription\, DNA-dependent		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex, nucleus, nucleolus -> nucleus, ribonucleoprotein complex	DAL81, HAL9
YNL292W	PUS4	tRNA modification -> RNA processing, tRNA metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YDR527W	NO SYMBOL				ABF1, SKN7
YJL069C	UTP18				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> ribosome biogenesis and assembly, conjugation with cellular fusion	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
Main:		RNA processing (0.67)	RNA binding (0.67)	nucleus (0.75)	ABF1 (0.60)
Score:		0.67	0.33	0.50	0.300
P-value:		1.780E-02 (RNA modification)	3.910E-01 (RNA binding)	1.255E-01 (nucleolus)	4.126E-02 (ABF1)

SWI5(1) AND Gcr1(1) AND SCB(1) => SimExpr(YLR272C) OR SimExpr(other) : 6 2

EXPR: (0.191) SWI5 (P < 0.007) Gcr1 (P < 0.008) SCB (P < 0.031)

ORF	SYMBOL	P	F	C	TF
YLR272C	YCS4	mitotic chromosome condensation -> DNA replication and chromosome cycle, M phase, mitotic cell cycle		nuclear condensin complex -> chromosome, nucleus
\|YKL108W\|	SLD2	DNA strand elongation -> DNA replication and chromosome cycle, mitotic cell cycle, DNA metabolism		replication fork -> nucleus	PHD1
YHR046C	INM1	myo-inositol metabolism -> hexose metabolism	myo-inositol-1(or 4)-monophosphatase activity -> myo-inositol-1(or 4)-monophosphatase activity
YLR354C	TAL1	pentose-phosphate shunt -> monosaccharide catabolism, main pathways of carbohydrate metabolism, oxidoreduction coenzyme metabolism, hexose metabolism, water-soluble vitamin metabolism	transaldolase activity -> transaldolase activity	cytoplasm -> cytoplasm	MBP1
YBR088C	POL30	leading strand elongation, lagging strand elongation, mutagenesis, base-excision repair, nucleotide-excision repair, mismatch repair, postreplication repair -> mutagenesis, DNA replication and chromosome cycle, DNA repair, S phase of mitotic cell cycle, DNA metabolism	DNA polymerase processivity factor activity -> DNA polymerase processivity factor activity	replication fork -> nucleus
\|YJL052W\|	TDH1	gluconeogenesis, glycolysis -> monosaccharide biosynthesis, monosaccharide catabolism, main pathways of carbohydrate metabolism, hexose metabolism	glyceraldehyde 3-phosphate dehydrogenase (phosphorylating) activity -> glyceraldehyde 3-phosphate dehydrogenase (phosphorylating) activity	cytosol, lipid particle, cell wall -> cytoplasm, cell wall	MAC1
YPR007C	SPO69	meiosis, sister chromatid cohesion -> M phase, DNA replication and chromosome cycle	binding -> binding	condensed nuclear chromosome\, pericentric region, nuclear cohesin complex -> chromosome, nuclear chromosome	MCM1
YLR229C	CDC42	exocytosis, apical bud growth, isotropic bud growth, pseudohyphal growth, invasive growth, Rho protein signal transduction, signal transduction during conjugation with cellular fusion, establishment of cell polarity (sensu Saccharomyces) -> exocytosis, bud growth, pseudohyphal growth, colony morphology, small GTPase mediated signal transduction, G-protein coupled receptor protein signaling pathway, conjugation with cellular fusion, organelle organization and biogenesis, perception of chemical substance, sensory perception	binding, signal transducer activity -> binding, signal transducer activity	soluble fraction, plasma membrane, bud tip, bud neck, shmoo tip -> soluble fraction, plasma membrane, site of polarized growth (sensu Fungi), site of polarized growth (sensu Saccharomyces)	ABF1, FZF1, INO2, RTS2
Main:		DNA replication and chromosome cycle (0.50)	binding (0.33)	nucleus (0.43)	ABF1 (0.20)
Score:		0.32	0.07	0.24	0.000
P-value:		1.797E-02 (DNA replication and chromosome cycle)	1.893E+00 (transferase activity)	1.896E-02 (replication fork)	6.046E-01 (RTS2)

ALPHA1(1) AND SWI5(1) AND ECB(1) AND SCB(1) => SimExpr(YLR272C) OR SimExpr(other) : 7 2

EXPR: (0.188) SWI5 (P < 0.005) ECB (P < 0.002) SCB (P < 0.020) ALPHA1 (P < 0.009)

ORF	SYMBOL	P	F	C	TF
YLR272C	YCS4	mitotic chromosome condensation -> cell proliferation, cell cycle		nuclear condensin complex -> chromosome, nucleus
YNR067C	DSE4	cytokinesis\, completion of separation -> cell proliferation	glucan 1\,3-beta-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	septum, extracellular -> septum, extracellular	YAP6
YOL011W	PLB3	phosphoinositide metabolism, phosphatidylserine catabolism -> catabolism, lipid metabolism	lysophospholipase activity -> hydrolase activity\, acting on ester bonds	extracellular space, plasma membrane -> extracellular, plasma membrane	SWI4
YDR180W	SCC2	mitotic sister chromatid cohesion -> cell proliferation, cell cycle	protein kinase activity -> transferase activity\, transferring phosphorus-containing groups	nuclear cohesin complex -> chromosome, nucleus	GLN3, MSN4, ROX1
YHR046C	INM1	myo-inositol metabolism -> alcohol metabolism, carbohydrate metabolism	myo-inositol-1(or 4)-monophosphatase activity -> hydrolase activity\, acting on ester bonds
YKL209C	STE6	peptide pheromone export -> transport	ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides	integral to plasma membrane, shmoo tip -> integral to membrane, site of polarized growth (sensu Fungi), plasma membrane	MCM1, STE12
\|YMR253C\|	NO SYMBOL				MCM1
\|YIL024C\|	NO SYMBOL
YML111W	BUL2	protein polyubiquitination, protein monoubiquitination -> catabolism, protein metabolism			PDR1, SMP1, SWI5, YAP5
Main:		cell proliferation (0.43)	hydrolase activity\, acting on ester bonds (0.40)	chromosome (0.40)	MCM1 (0.33)
Score:		0.19	0.10	0.30	0.067
P-value:		2.391E-02 (chromosome condensation)	3.682E-01 (hydrolase activity)	1.133E-02 (extracellular)	4.214E-01 (MCM1)

ALPHA1(1) AND ALPHA2(1) AND SWI5(1) AND SCB(1) => SimExpr(YLR272C) OR SimExpr(other) : 10 4

ALPHA1(1) AND ALPHA2(1) AND SFF(1) AND SWI5(1) AND SCB(1) => SimExpr(YLR272C) OR SimExpr(other) : 8 3

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND SFF(1) AND SCB(1) => SimExpr(YLR272C) OR SimExpr(other) : 7 3

ALPHA1(1) AND ALPHA2(1) AND ALPHA1'(1) AND SWI5(1) AND SCB(1) => SimExpr(YLR272C) OR SimExpr(other) : 6 1

ALPHA1'(1) AND STE12(1) AND PAC(1) => SimExpr(YPR137W) OR SimExpr(other) : 5 1

ALPHA2(1) AND PAC(1) => SimExpr(YJR070C) OR SimExpr(other) : 16 4

LYS14(1) AND PAC(1) => SimExpr(YJR070C) OR SimExpr(other) : 14 5

ALPHA2(1) AND PAC(1) AND SCB(1) => SimExpr(YJR070C) OR SimExpr(other) : 7 1

LYS14(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YJR070C) OR SimExpr(other) : 7 2

EXPR: (0.171) LYS14 (P < 0.000) ALPHA1' (P < 0.002) PAC (P < 0.248)

ORF	SYMBOL	P	F	C	TF
YML093W	UTP14	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YJR070C	NO SYMBOL				GAT3, YAP5
YGR191W	HIP1	manganese ion transport, histidine transport -> transport, organic acid transport	histidine transporter activity -> carboxylic acid transporter activity	plasma membrane -> plasma membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
\|YGR178C\|	PBP1	mRNA polyadenylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		cytoplasm, nucleus -> cytoplasm, nucleus	CIN5, DOT6, MSS11
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
YDR361C	BCP1				ABF1, ARO80, GLN3, HAP5, IXR1, YAP1
YGL099W	LSG1	conjugation with cellular fusion, sporulation (sensu Saccharomyces), ribosome nucleus export -> conjugation, sporulation, cell organization and biogenesis, protein metabolism, transport, sexual reproduction	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm -> cytoplasm	PHO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.67)	RNA binding (0.40)	nucleus (0.60)	CIN5 YAP1 GLN3 (0.29)
Score:		0.60	0.10	0.40	0.095
P-value:		7.105E-02 (ribosome biogenesis)	8.137E-01 (RNA binding)	3.253E-01 (nucleolus)	1.161E-01 (GLN3)

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJR070C) OR SimExpr(other) : 22 2

ALPHA2(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJR070C) OR SimExpr(other) : 8 2

EXPR: (0.137) ALPHA2 (P < 0.001) mRRPE (P < 0.004) PAC (P < 0.036)

ORF	SYMBOL	P	F	C	TF
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YJR070C	NO SYMBOL				GAT3, YAP5
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
\|YNR046W\|	NO SYMBOL				ABF1
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YKL172W	EBP2	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus	ABF1, FZF1, RFX1
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YLR249W	YEF3	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	INO2, INO4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.75)	RNA binding (0.40)	nucleus (0.67)	ABF1 (0.33)
Score:		0.64	0.20	0.53	0.083
P-value:		8.504E-05 (rRNA processing)	2.076E-01 (transferase activity\, transferring glycosyl groups)	3.152E-03 (nucleolus)	3.037E-01 (ABF1)

ALPHA2(1) AND ALPHA1'(1) AND PAC(1) => SimExpr(YJR070C) OR SimExpr(other) : 8 1

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YJR070C) : 9

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YJR070C) : 8

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YMR131C) OR SimExpr(other) : 21 3

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YMR131C) : 8

CCA(1) AND PAC(1) => SimExpr(YIL118W) OR SimExpr(other) : 5 2

EXPR: (0.172) CCA (P < 0.001) PAC (P < 0.211)

ORF	SYMBOL	P	F	C	TF
\|YLR049C\|	NO SYMBOL				MBP1, SWI5
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> secretory pathway, intracellular signaling cascade, cytoplasm organization and biogenesis, vesicle-mediated transport	Rho small monomeric GTPase activity, signal transducer activity -> Rho small monomeric GTPase activity, signal transducer activity	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YJL138C	TIF2	translational initiation, regulation of translational initiation -> macromolecule biosynthesis, protein metabolism	translation initiation factor activity, RNA helicase activity -> translation initiation factor activity, RNA helicase activity	intracellular -> intracellular	PHD1
YOR272W	YTM1	chromosome organization and biogenesis (sensu Eukarya), ribosomal large subunit biogenesis -> nuclear organization and biogenesis, cytoplasm organization and biogenesis		intracellular -> intracellular	LEU3, PUT3, REB1
YLR002C	NOC3	DNA replication initiation, rRNA processing -> cytoplasm organization and biogenesis, cell cycle, DNA metabolism, RNA metabolism, transcription	chromatin binding, protein binding -> chromatin binding, protein binding	intracellular -> intracellular	HIR1, IXR1, RCS1
YPR144C	NOC4	ribosome biogenesis -> cytoplasm organization and biogenesis		intracellular -> intracellular	HIR1
\|YDR076W\|	RAD55	meiotic DNA recombinase assembly, DNA recombinase assembly, double-strand break repair via synthesis-dependent strand annealing, double-strand break repair via break-induced replication, double-strand break repair via single-strand annealing -> mating-type switching/recombination, cell cycle, DNA metabolism	protein binding -> protein binding	intracellular -> intracellular	DAL81
Main:		cytoplasm organization and biogenesis (0.67)	protein binding (0.50)	intracellular (1.00)	PHD1 HIR1 (0.29)
Score:		0.47	0.17	1.00	0.095
P-value:		2.436E-02 (ribosome biogenesis)	4.242E-01 (protein binding)	2.909E+00 (intracellular)	9.226E-02 (HIR1)

ALPHA1(1) AND PAC(1) AND SCB(1) => SimExpr(YIL118W) OR SimExpr(other) : 17 4

RPN4(1) AND MCM1'(1) AND SCB(1) => SimExpr(YCR061W) : 5

SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YMR259C) OR SimExpr(other) : 9 3

ALPHA1(1) AND PAC(1) AND SCB(1) => SimExpr(YMR259C) OR SimExpr(other) : 18 3

mRRPE(1) AND PAC(1) => SimExpr(YMR259C) OR SimExpr(other) : 80 5

mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YMR259C) OR SimExpr(other) : 21 1

mRRPE(1) AND PHO4(1) => SimExpr(YMR259C) OR SimExpr(other) : 5 2

EXPR: (0.170) mRRPE (P < 0.147) PHO4 (P < 0.027)

ORF	SYMBOL	P	F	C	TF
\|YOR006C\|	NO SYMBOL
YGR200C	ELP2	regulation of transcription from Pol II promoter -> regulation of transcription, transcription\, DNA-dependent	Pol II transcription elongation factor activity -> Pol II transcription elongation factor activity	transcription elongation factor complex -> nucleus	YJL206C
YHR089C	GAR1	rRNA modification, 35S primary transcript processing -> RNA processing, ribosome biogenesis and assembly, rRNA metabolism, transcription\, DNA-dependent	RNA binding -> RNA binding	nucleolus, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	CBF1, FZF1
YML018C	NO SYMBOL
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
\|YMR042W\|	ARG80	positive regulation of transcription from Pol II promoter, arginine metabolism -> amino acid metabolism, regulation of transcription, urea cycle intermediate metabolism, transcription\, DNA-dependent	DNA binding, specific RNA polymerase II transcription factor activity -> DNA binding, specific RNA polymerase II transcription factor activity	nucleus -> nucleus	RME1
YGR233C	PHO81	phosphate metabolism -> phosphate metabolism	cyclin-dependent protein kinase inhibitor activity -> cyclin-dependent protein kinase inhibitor activity		CAD1, CIN5, HIR2, INO4, PHD1
Main:		transcription\, DNA-dependent (0.75)	specific RNA polymerase II transcription factor activity (0.25)	nucleus (1.00)	GCR2 (0.20)
Score:		0.50	0.00	1.00	0.000
P-value:		3.006E-01 (regulation of transcription from Pol II promoter)	5.709E-01 (transcription regulator activity)	2.273E+00 (nucleus)	1.000E+00

mRRPE(1) AND SWI5(1) AND PAC(1) => SimExpr(YMR259C) OR SimExpr(other) : 15 2

SFF(1) AND mRRPE(1) AND PAC(1) => SimExpr(YMR259C) OR SimExpr(other) : 34 3

ALPHA1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YMR259C) OR SimExpr(other) : 23 1

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YMR259C) : 9

ALPHA1(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YMR259C) : 8

mRRPE(1) AND SWI5(1) AND PAC(1) AND SCB(1) => SimExpr(YMR259C) : 6

SFF(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YMR259C) : 11

LYS14(1) AND SFF(1) AND mRRPE(1) AND SCB(1) => SimExpr(YMR259C) : 5

ALPHA2(1) AND ALPHA1'(1) AND mRRPE(1) => SimExpr(YLR222C) OR SimExpr(other) : 15 7

ALPHA1'(1) AND SFF'(1) AND PAC(1) => SimExpr(YLR222C) OR SimExpr(other) : 41 18

EXPR: (0.175) ALPHA1' (P < 0.000) SFF' (P < 0.000) PAC (P < 0.537)

ORF	SYMBOL	P	F	C	TF
\|YMR094W\|	CTF13	centromere/kinetochore complex maturation -> cell proliferation	centromeric DNA binding, DNA bending activity -> nucleic acid binding	condensed nuclear chromosome kinetochore -> intracellular
\|YFL011W\|	HXT10	hexose transport -> transport	glucose transporter activity, fructose transporter activity, mannose transporter activity, galactose transporter activity -> transporter activity	plasma membrane -> plasma membrane	GTS1, MBP1, RTG3
YPR031W	NTO1				MSN2, RCS1
YNL132W	KRE33
\|YOL041C\|	NOP12	rRNA metabolism -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular	GTS1, MET31
YDR364C	CDC40	DNA replication, S phase of mitotic cell cycle, mRNA splicing, mitotic spindle assembly (sensu Saccharomyces) -> cytoplasm organization and biogenesis, cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, M phase	nucleic acid binding, pre-mRNA splicing factor activity -> nucleic acid binding	spliceosome complex, nuclear membrane, nuclear pore -> pore complex, intracellular, endomembrane system
YIL118W	RHO3	exocytosis, small GTPase mediated signal transduction, establishment of cell polarity (sensu Saccharomyces), actin filament organization -> signal transduction, cell organization and biogenesis, transport	Rho small monomeric GTPase activity, signal transducer activity -> purine nucleotide binding, signal transducer activity, hydrolase activity\, acting on acid anhydrides	intracellular -> intracellular	CIN5, NRG1, PHD1, SKN7, SOK2, YAP6
YML043C	RRN11	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity -> RNA polymerase I transcription factor activity	RNA polymerase I transcription factor complex -> intracellular	MAL13
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular
\|YLL027W\|	ISA1	iron ion transport -> transport		mitochondrial matrix -> intracellular	HAP2, HAP3, HAP5, HSF1, YAP3
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	HIR2, USV1
\|YOL075C\|	NO SYMBOL				CRZ1, DAL82, SIP4
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> oxidoreductase activity\, acting on CH2 groups	cytoplasm -> intracellular	RFX1, STB1
\|YBL066C\|	SEF1
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	USV1
YNL308C	KRI1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> intracellular
YNR024W	NO SYMBOL
\|YNL277W\|	MET2	methionine biosynthesis, homoserine metabolism -> amine metabolism, sulfur metabolism, biosynthesis, amino acid and derivative metabolism, organic acid metabolism	homoserine O-acetyltransferase activity -> transferase activity\, transferring acyl groups	cytoplasm -> intracellular	CBF1, MET31, MET4, STE12
\|YHR146W\|	CRP1		DNA binding -> nucleic acid binding	nucleus -> intracellular	IXR1
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular
\|YJL105W\|	SET4				ASH1, CIN5, FKH1, MTH1, PHD1, SKN7
YGR251W	NO SYMBOL				MSN4, PHD1, SKN7
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> intracellular, endomembrane system	SWI5
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> intracellular	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> intracellular
YNL112W	DBP2		RNA helicase activity -> nucleic acid binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
YCR090C	NO SYMBOL
YGR191W	HIP1	manganese ion transport, histidine transport -> transport, organic acid transport	histidine transporter activity -> transporter activity	plasma membrane -> plasma membrane	GLN3, HAP3, HIR2, MBP1, MCM1, REB1, YAP1
YOR359W	VTS1	protein-vacuolar targeting -> cell organization and biogenesis, protein metabolism, transport	intracellular transporter activity -> transporter activity	cytosol -> intracellular	RAP1
\|YGR178C\|	PBP1	mRNA polyadenylation -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		cytoplasm, nucleus -> intracellular	CIN5, DOT6, MSS11
YCR016W	NO SYMBOL
\|YBR292C\|	NO SYMBOL				STE12, ZMS1
YCR072C	NO SYMBOL				YFL044C
YLR221C	RSA3
\|YBR104W\|	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> intracellular, inner membrane	FKH1, FKH2
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> intracellular
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> intracellular	ABF1, SWI6
YPR137W	RRP9	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> intracellular	ABF1, HIR1, RCS1
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
\|YBR117C\|	TKL2	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups		FHL1, RAP1
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> intracellular	ABF1, AZF1
YOR021C	NO SYMBOL				ARG80, GCR2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
\|YLL010C\|	PSR1	response to stress -> response to stress	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	plasma membrane -> plasma membrane	CBF1
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1, MSS11, SIG1, SKO1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> nucleic acid binding	nucleolus -> intracellular
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> nucleic acid binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> intracellular	MATa1, RCS1, RTG3, SWI5
YGR158C	MTR3	35S primary transcript processing, mRNA catabolism -> cell organization and biogenesis, catabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	3'-5' exoribonuclease activity -> hydrolase activity\, acting on ester bonds, nucleic acid binding	nuclear exosome (RNase complex), cytoplasmic exosome (RNase complex) -> intracellular	ZMS1
YKL014C	NO SYMBOL				ABF1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	ABF1
YGL189C	RPS26A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic small ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, GAT3, PDR1, RAP1, RGM1, YAP5
YPL143W	RPL33A	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> intracellular	FHL1, MET4, NDD1, PDR1, RAP1, RME1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> nucleic acid binding	small nucleolar ribonucleoprotein complex -> intracellular	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
YDR361C	BCP1				ABF1, ARO80, GLN3, HAP5, IXR1, YAP1
\|YKL120W\|	OAC1	oxaloacetate transport, sulfate transport -> transport	oxaloacetate carrier activity, sulfate porter activity -> transporter activity	mitochondrial inner membrane -> intracellular, inner membrane	LEU3, MTH1
YPL106C	SSE1	protein folding -> protein metabolism	co-chaperone activity -> co-chaperone activity	cytoplasm -> intracellular	HSF1, MSN4
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.53)	nucleic acid binding (0.46)	intracellular (0.88)	ABF1 (0.16)
Score:		0.41	0.23	0.77	0.087
P-value:		2.274E-08 (rRNA processing)	2.024E-04 (snoRNA binding)	2.922E-10 (nucleolus)	1.000E+00

ALPHA2(1) AND ALPHA1'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YLR222C) OR SimExpr(other) : 6 1

EXPR: (0.132) ALPHA2 (P < 0.000) ALPHA1' (P < 0.002) mRRPE (P < 0.041) PAC (P < 0.249)

ORF	SYMBOL	P	F	C	TF
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleolus	HIR2, USV1
YJR070C	NO SYMBOL				GAT3, YAP5
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network	SWI5
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleolus
YHR128W	FUR1	pyrimidine salvage -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	uracil phosphoribosyltransferase activity -> transferase activity\, transferring glycosyl groups		CIN5
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleolus, ribonucleoprotein complex	ABF1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.83)	RNA binding (0.50)	nucleolus (0.75)	ABF1 (0.17)
Score:		0.73	0.33	0.50	0.000
P-value:		3.894E-04 (rRNA processing)	1.018E-01 (transferase activity\, transferring glycosyl groups)	1.112E-02 (nucleolus)	6.777E-01 (USV1)

ALPHA1'(1) AND SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YLR222C) OR SimExpr(other) : 26 4

EXPR: (0.122) ALPHA1' (P < 0.000) SFF' (P < 0.000) mRRPE (P < 0.000) PAC (P < 0.014)

ORF	SYMBOL	P	F	C	TF
YNL132W	KRE33
YJL109C	UTP10	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YJL033W	HCA4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	HIR2, USV1
YNL075W	IMP4	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	rRNA primary transcript binding -> RNA binding	small nucleolar ribonucleoprotein complex, small nuclear ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	USV1
YNL308C	KRI1	ribosome biogenesis -> cell organization and biogenesis		nucleolus -> nucleus
YNR024W	NO SYMBOL
YHR169W	DBP8	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus
\|YPR183W\|	DPM1	N-linked glycosylation, O-linked glycosylation, GPI anchor biosynthesis -> lipid biosynthesis, biosynthesis, membrane lipid metabolism, protein metabolism, lipoprotein metabolism	transferase activity\, transferring glycosyl groups, dolichyl-phosphate beta-D-mannosyltransferase activity -> transferase activity\, transferring glycosyl groups	endoplasmic reticulum, nuclear envelope-endoplasmic reticulum network -> cytoplasm, endomembrane system	SWI5
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YGR245C	SDA1	actin cytoskeleton organization and biogenesis, start control point of mitotic cell cycle -> cell organization and biogenesis, cell proliferation		nucleus -> nucleus
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YCR090C	NO SYMBOL
YOR359W	VTS1	protein-vacuolar targeting -> cell organization and biogenesis, protein metabolism, transport	intracellular transporter activity -> transporter activity	cytosol -> cytoplasm	RAP1
YCR016W	NO SYMBOL
YCR072C	NO SYMBOL				YFL044C
\|YBR104W\|	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YGL029W	CGR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, SWI6
YOR381W	FRE3	iron-siderochrome transport, iron ion homeostasis -> transport, cell homeostasis	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane, integral to membrane -> plasma membrane, integral to membrane	CIN5, PDR1, YAP6
YNR053C	NOG2	mRNA splicing -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleus, nucleolus, nucleoplasm -> nucleus, nucleoplasm	ABF1, AZF1
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YOR078W	BUD21	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
\|YDR279W\|	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
\|YOR095C\|	RKI1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	ribose-5-phosphate isomerase activity -> intramolecular isomerase activity		FHL1, FKH2, RAP1
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA binding, purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
YKL014C	NO SYMBOL				ABF1
YLR222C	UTP13	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	ABF1
YDR449C	UTP6	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	FHL1, GAT3, HIR2, RAP1, RGM1, YAP5
Main:		cell organization and biogenesis (0.71)	RNA binding (0.59)	nucleus (0.76)	ABF1 (0.28)
Score:		0.64	0.36	0.60	0.124
P-value:		1.688E-10 (rRNA processing)	2.502E-04 (snoRNA binding)	5.931E-12 (nucleolus)	1.000E+00

ABF1(1) AND PAC(1) => SimExpr(YNR046W) OR SimExpr(other) : 13 3

ALPHA2(1) AND PAC(1) => SimExpr(YNR046W) OR SimExpr(other) : 16 4

ABF1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YNR046W) OR SimExpr(other) : 8 2

EXPR: (0.142) ABF1 (P < 0.001) mRRPE (P < 0.000) PAC (P < 0.053)

ORF	SYMBOL	P	F	C	TF
\|YLR197W\|	SIK1	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex, nucleus, nucleolus -> nucleus, ribonucleoprotein complex	DAL81, HAL9
YJL050W	MTR4	35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> RNA helicase activity, ATP dependent helicase activity, RNA dependent ATPase activity	nucleolus -> nucleus
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> pseudouridylate synthase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA helicase activity	bud neck -> site of polarized growth (sensu Fungi)
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YKL172W	EBP2	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus	ABF1, FZF1, RFX1
YPR010C	RPA135	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> DNA-directed RNA polymerase activity	DNA-directed RNA polymerase I complex -> nucleus	ROX1, SIG1
YJL069C	UTP18				ABF1
\|YKL014C\|	NO SYMBOL				ABF1
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (1.00)	RNA helicase activity (0.50)	nucleus (0.83)	ABF1 (0.62)
Score:		1.00	0.17	0.67	0.393
P-value:		4.684E-03 (transcription from Pol I promoter)	2.768E-02 (RNA helicase activity)	2.364E-03 (nucleolus)	2.752E-03 (ABF1)

mRRPE(1) AND PHO(1) => SimExpr(YDL167C) OR SimExpr(other) : 8 3

ALPHA2(1) AND PAC(1) => SimExpr(YIL096C) OR SimExpr(other) : 17 3

ALPHA2(1) AND PAC(1) AND SCB(1) => SimExpr(YIL096C) : 8

ALPHA2(1) AND ndt80(MSE)(1) => SimExpr(YOL028C) : 5

ALPHA2(1) AND PAC(1) => SimExpr(YLR336C) OR SimExpr(other) : 18 2

ALPHA2(1) AND PAC(1) AND SCB(1) => SimExpr(YLR336C) : 8

ALPHA2(1) AND PAC(1) => SimExpr(YMR049C) OR SimExpr(other) : 18 2

BAS1(1) AND PAC(1) => SimExpr(YMR049C) OR SimExpr(other) : 8 1

ALPHA2(1) AND ndt80(MSE)(1) => SimExpr(YFR032C) : 5

ABF1(1) AND PAC(1) => SimExpr(YGR187C) OR SimExpr(other) : 14 2

ABF1(1) AND SFF'(1) AND PAC(1) => SimExpr(YGR187C) OR SimExpr(other) : 10 1

EXPR: (0.125) ABF1 (P < 0.000) SFF' (P < 0.000) PAC (P < 0.013)

ORF	SYMBOL	P	F	C	TF
YHR027C	RPN1	ubiquitin-dependent protein catabolism -> macromolecule catabolism, protein metabolism	endopeptidase activity, receptor activity -> peptidase activity, receptor activity	proteasome regulatory particle (sensu Eukarya), endoplasmic reticulum, cytoplasm -> cytoplasm, nucleus
\|YOL041C\|	NOP12	rRNA metabolism -> RNA metabolism	RNA binding -> RNA binding	nucleolus -> nucleus	GTS1, MET31
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> RNA metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
YKL078W	DHR2	ribosome biogenesis -> cytoplasm organization and biogenesis	RNA helicase activity -> RNA binding	nucleolus -> nucleus	ABF1
YJL069C	UTP18				ABF1
YKL014C	NO SYMBOL				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cytoplasm organization and biogenesis, conjugation with cellular fusion	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
Main:		cytoplasm organization and biogenesis (0.40)	RNA binding (0.67)	nucleus (0.83)	ABF1 (0.67)
Score:		0.20	0.40	0.67	0.472
P-value:		9.665E-01 (ribosome biogenesis and assembly)	3.365E-02 (RNA helicase activity)	5.457E-02 (nucleolus)	3.589E-04 (ABF1)

ABF1(1) AND SFF(1) AND PAC(1) => SimExpr(YGR187C) OR SimExpr(other) : 7 1

EXPR: (0.125) ABF1 (P < 0.000) SFF (P < 0.000) PAC (P < 0.021)

ORF	SYMBOL	P	F	C	TF
\|YOL041C\|	NOP12	rRNA metabolism -> RNA metabolism	RNA binding -> RNA binding	nucleolus -> nucleus	GTS1, MET31
YNL292W	PUS4	tRNA modification -> RNA metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YGR283C	NO SYMBOL				ACE2, RAP1, SMP1
YKL078W	DHR2	ribosome biogenesis -> cytoplasm organization and biogenesis	RNA helicase activity -> RNA binding	nucleolus -> nucleus	ABF1
YJL069C	UTP18				ABF1
YKL014C	NO SYMBOL				ABF1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cytoplasm organization and biogenesis, conjugation with cellular fusion	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
Main:		cytoplasm organization and biogenesis (0.50)	RNA binding (0.75)	nucleus (1.00)	ABF1 (0.62)
Score:		0.33	0.50	1.00	0.429
P-value:		5.379E-01 (ribosome biogenesis and assembly)	9.691E-02 (RNA binding)	1.729E-02 (nucleolus)	7.462E-04 (ABF1)

ABF1(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGR187C) OR SimExpr(other) : 9 1

ABF1(1) AND SFF(1) AND mRRPE(1) => SimExpr(YGR187C) OR SimExpr(other) : 13 6

ABF1(1) AND SFF'(1) AND mRRPE(1) => SimExpr(YGR187C) OR SimExpr(other) : 15 7

EXPR: (0.208) ABF1 (P < 0.022) SFF' (P < 0.001) mRRPE (P < 0.177)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
\|YAR019C\|	CDC15	cytokinesis, regulation of exit from mitosis, protein amino acid phosphorylation -> phosphorus metabolism, cell proliferation, mitotic cell cycle, protein metabolism	protein kinase activity -> transferase activity\, transferring phosphorus-containing groups	spindle pole body -> cytoplasm	PHO4
YHR061C	GIC1	axial budding, Rho protein signal transduction, establishment of cell polarity (sensu Saccharomyces) -> asexual reproduction, signal transduction, cell organization and biogenesis	small GTPase regulatory/interacting protein activity -> small GTPase regulatory/interacting protein activity	actin cap (sensu Saccharomyces), bud neck, bud tip, incipient bud site -> cell cortex, site of polarized growth (sensu Fungi), incipient bud site, cytoplasm	FKH2, MBP1, STB1, SWI4, SWI6
YMR308C	PSE1	mRNA-nucleus export -> transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	SWI4
YNR046W	NO SYMBOL				ABF1
\|YDR374C\|	NO SYMBOL				RME1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YDR385W	EFT2	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation regulator activity	ribosome -> cytoplasm, ribonucleoprotein complex	ABF1, FHL1, INO4
YDL116W	NUP84	mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear membrane organization and biogenesis, nuclear pore organization and biogenesis -> intracellular transport, intracellular protein transport, cell organization and biogenesis, protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transport	structural molecule activity -> structural molecule activity	nuclear pore -> nucleus, integral to membrane, endomembrane system	ABF1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
\|YGR282C\|	BGL2	cell wall organization and biogenesis -> cell organization and biogenesis	glucan 1\,3-beta-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	cell wall -> cell wall	ABF1, CIN5, SMP1
YLR293C	GSP1	nucleocytoplasmic transport, nuclear organization and biogenesis, rRNA processing -> transport, cell organization and biogenesis, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RAN small monomeric GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm, nucleus -> cytoplasm, nucleus	ABF1
\|YJL159W\|	HSP150	cell wall organization and biogenesis -> cell organization and biogenesis	structural constituent of cell wall -> structural molecule activity	cell wall -> cell wall	ACE2, HIR2, MCM1, RLM1, SWI5
\|YGR222W\|	PET54	mRNA splicing, protein biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	translation regulator activity -> translation regulator activity	mitochondrial inner membrane, mitochondrial matrix -> cytoplasm, inner membrane	SIG1, ZAP1
\|YIR010W\|	DSN1	chromosome segregation -> cell proliferation		spindle pole -> cytoplasm	ABF1
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YDR172W	SUP35	translational termination -> biosynthesis, protein metabolism	translation release factor activity -> translation regulator activity	cytosol -> cytoplasm	ABF1, ZMS1
YJL069C	UTP18				ABF1
\|YAL016W\|	TPD3	protein biosynthesis, actin filament organization, mitotic spindle checkpoint, bud growth, protein amino acid dephosphorylation -> biosynthesis, cell organization and biogenesis, asexual reproduction, phosphorus metabolism, cell proliferation, cell cycle, protein metabolism	protein phosphatase type 2A activity -> hydrolase activity\, acting on ester bonds	protein phosphatase type 2A complex, bud neck, nucleus, cytoplasm, shmoo tip, bud tip, spindle pole body -> protein phosphatase type 2A complex, nucleus, site of polarized growth (sensu Fungi), site of polarized growth (sensu Saccharomyces), cytoplasm, microtubule organizing center	ABF1
YKL014C	NO SYMBOL				ABF1
Main:		cell organization and biogenesis (0.40)	translation regulator activity (0.19)	cytoplasm (0.69)	ABF1 (0.65)
Score:		0.44	0.05	0.53	0.421
P-value:		7.696E-02 (nucleocytoplasmic transport)	6.049E-02 (protein carrier activity)	1.214E-01 (spindle pole)	3.421E-09 (ABF1)

ABF1(1) AND SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGR187C) : 6

EXPR: (0.130) ABF1 (P < 0.001) SFF' (P < 0.000) mRRPE (P < 0.008) PAC (P < 0.072)

ORF	SYMBOL	P	F	C	TF
YNR046W	NO SYMBOL				ABF1
YNL292W	PUS4	tRNA modification -> tRNA modification	pseudouridylate synthase activity -> pseudouridylate synthase activity	mitochondrion, nucleus -> mitochondrion, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA helicase activity	bud neck -> bud neck
YGR187C	HGH1				ABF1, HAP3, HIR1, RCS1, RTG1
YJL069C	UTP18				ABF1
YKL014C	NO SYMBOL				ABF1
Main:		tRNA modification (1.00)	RNA helicase activity (0.50)	mitochondrion (0.50)	ABF1 (0.80)
Score:		0.00	0.00	0.00	0.700
P-value:		0.000E+00	2.735E+00 (enzyme activity)	3.000E+00 (cell)	1.340E-03 (ABF1)

RPN4(1) AND MCM1'(1) AND SCB(1) => SimExpr(YHL024W) : 5

ABF1(1) AND PAC(1) => SimExpr(YLR197W) OR SimExpr(other) : 11 5

ABF1(1) AND PAC(1) AND SCB(1) => SimExpr(YLR197W) : 6

SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YNL112W) OR SimExpr(other) : 40 4

ABF1(1) AND PAC(1) => SimExpr(YNL112W) : 16

SFF'(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YNL112W) : 13

ABF1(1) AND SFF'(1) AND SCB(1) => SimExpr(YNL292W) OR SimExpr(other) : 21 10

EXPR: (0.203) ABF1 (P < 0.005) SFF' (P < 0.000) SCB (P < 0.002)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
YFR028C	CDC14	DNA dependent DNA replication, protein amino acid dephosphorylation, regulation of exit from mitosis -> phosphorus metabolism, cell cycle, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	protein phosphatase activity -> hydrolase activity\, acting on ester bonds	nucleus, spindle pole body, nucleolus -> cytoplasm, nucleus, microtubule organizing center
YMR010W	NO SYMBOL
\|YPL129W\|	TAF14	G1-specific transcription in mitotic cell cycle, chromatin modeling, transcription initiation from Pol II promoter -> cell proliferation, cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, DNA metabolism	general RNA polymerase II transcription factor activity -> general RNA polymerase II transcription factor activity	transcription factor TFIID complex, transcription factor TFIIF complex, nucleosome remodeling complex, SWI/SNF complex -> nucleoplasm	SUM1
\|YHR131C\|	NO SYMBOL				PHO4
YGR056W	RSC1	chromatin modeling -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleosome remodeling complex -> nucleus	ABF1, HIR2
YOR211C	MGM1	mitochondrion organization and biogenesis, mitochondrial genome maintenance, mitochondrial fusion -> cell organization and biogenesis, cytoplasm organization and biogenesis	dynamine GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	mitochondrial intermembrane space -> cytoplasm
YMR308C	PSE1	mRNA-nucleus export -> transport, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	SWI4
YGL225W	VRG4	nucleotide-sugar transport, N-linked glycosylation, lipid glycosylation -> transport, biosynthesis, lipid metabolism, protein metabolism	nucleotide-sugar transporter activity -> nucleotide-sugar transporter activity	Golgi apparatus -> cytoplasm
\|YHL024W\|	RIM4	sporulation, meiosis, premeiotic DNA synthesis, meiotic recombination -> sporulation, M phase, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, cell proliferation	RNA binding -> RNA binding	cytoplasm -> cytoplasm	FKH2, PHD1
\|YDR374C\|	NO SYMBOL				RME1
YNL292W	PUS4	tRNA modification -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	pseudouridylate synthase activity -> carbon-oxygen lyase activity	mitochondrion, nucleus -> cytoplasm, nucleus	RCS1
YNL112W	DBP2		RNA helicase activity -> RNA binding	bud neck -> site of polarized growth (sensu Fungi)
YDR222W	NO SYMBOL
YDL116W	NUP84	mRNA-nucleus export, rRNA-nucleus export, snRNA-nucleus export, tRNA-nucleus export, NLS-bearing substrate-nucleus import, snRNP protein-nucleus import, mRNA-binding (hnRNP) protein-nucleus import, ribosomal protein-nucleus import, protein-nucleus export, nuclear membrane organization and biogenesis, nuclear pore organization and biogenesis -> intracellular transport, intracellular protein transport, cell organization and biogenesis, protein metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transport	structural molecule activity -> structural molecule activity	nuclear pore -> nucleus, integral to membrane, endomembrane system	ABF1
YPL242C	IQG1	response to osmotic stress, actin filament organization, cytokinesis -> response to abiotic stimulus, cell organization and biogenesis, cell proliferation	cytoskeletal protein binding -> cytoskeletal protein binding	contractile ring (sensu Saccharomyces) -> site of polarized growth (sensu Fungi), cell cortex, cytoplasm	ABF1, FKH2, NDD1
YNL111C	CYB5	sterol biosynthesis -> alcohol metabolism, biosynthesis, lipid metabolism	electron transporter activity -> electron transporter activity	microsome -> membrane fraction	ABF1, GCR2, GTS1, NRG1, REB1, ROX1
\|YPL159C\|	NO SYMBOL				ABF1, UGA3
\|YGR282C\|	BGL2	cell wall organization and biogenesis -> cell organization and biogenesis	glucan 1\,3-beta-glucosidase activity -> hydrolase activity\, acting on glycosyl bonds	cell wall -> cell wall	ABF1, CIN5, SMP1
YLR293C	GSP1	nucleocytoplasmic transport, nuclear organization and biogenesis, rRNA processing -> transport, cell organization and biogenesis, RNA metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RAN small monomeric GTPase activity -> purine nucleotide binding, hydrolase activity\, acting on acid anhydrides	cytoplasm, nucleus -> cytoplasm, nucleus	ABF1
\|YJL159W\|	HSP150	cell wall organization and biogenesis -> cell organization and biogenesis	structural constituent of cell wall -> structural molecule activity	cell wall -> cell wall	ACE2, HIR2, MCM1, RLM1, SWI5
YLR314C	CDC3	cellular morphogenesis, cytokinesis, cell wall organization and biogenesis, axial budding, establishment of cell polarity (sensu Saccharomyces) -> cell proliferation, budding, cell organization and biogenesis	structural constituent of cytoskeleton, phosphatidylinositol binding -> structural molecule activity, phospholipid binding	septin ring (sensu Saccharomyces), spore wall (sensu Fungi), prospore membrane, shmoo tip -> cell wall, prospore, site of polarized growth (sensu Fungi), cell cortex, cytoskeleton	SFP1
YDR091C	RLI1		ATP-binding cassette (ABC) transporter activity -> purine nucleotide binding, primary active transporter activity, hydrolase activity\, acting on acid anhydrides
YPL232W	SSO1	Golgi to plasma membrane transport, nonselective vesicle fusion -> transport	t-SNARE activity -> SNAP receptor activity	integral to plasma membrane -> integral to membrane, plasma membrane	ABF1
YJL069C	UTP18				ABF1
YPL210C	SRP72	protein-ER targeting -> cell organization and biogenesis, protein metabolism, transport	signal sequence binding -> signal sequence binding	signal recognition particle -> cytoplasm
\|YBL074C\|	AAR2	snRNP recycling -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		snRNP U5 -> nucleus, ribonucleoprotein complex	AZF1, GCR1, MSS11, RGT1, RME1, ROX1, SIG1
\|YMR280C\|	CAT8	gluconeogenesis, positive regulation of transcription from Pol II promoter -> alcohol metabolism, monosaccharide metabolism, carbohydrate metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, biosynthesis, energy pathways	specific RNA polymerase II transcription factor activity -> specific RNA polymerase II transcription factor activity	nucleus -> nucleus	ABF1, REB1
YDR312W	SSF2	ribosomal large subunit assembly and maintenance, conjugation with cellular fusion -> cell organization and biogenesis, conjugation, sexual reproduction	rRNA binding -> RNA binding	nucleolus -> nucleus	ABF1, FKH2, INO4, RAP1
\|YFL036W\|	RPO41	mitochondrial genome maintenance, transcription from mitochondrial promoter -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	mitochondrial matrix -> cytoplasm
YOL100W	PKH2	protein amino acid phosphorylation, MAPKKK cascade (cell wall biogenesis) -> phosphorus metabolism, signal transduction, cell organization and biogenesis, protein metabolism	protein kinase activity -> transferase activity\, transferring phosphorus-containing groups	nucleus -> nucleus
Main:		cell organization and biogenesis (0.57)	hydrolase activity\, acting on acid anhydrides (0.13)	cytoplasm (0.46)	ABF1 (0.57)
Score:		0.58	0.04	0.39	0.338
P-value:		4.006E-01 (nucleocytoplasmic transport)	1.617E-01 (protein carrier activity)	1.710E-01 (nucleosome remodeling complex)	8.670E-06 (ABF1)

Gcr1(1) AND PAC(1) => SimExpr(YNL292W) OR SimExpr(other) : 5 1

ABF1(1) AND PAC(1) => SimExpr(YNL292W) OR SimExpr(other) : 14 2

ABF1(1) AND PAC(1) AND SCB(1) => SimExpr(YNL292W) : 6

ABF1(1) AND PAC(1) => SimExpr(YJL050W) : 16

STE12(1) AND PAC(1) => SimExpr(YNL141W) OR SimExpr(other) : 9 2

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YGL099W) : 9

LYS14(1) AND PAC(1) => SimExpr(YML093W) OR SimExpr(other) : 13 6

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YML093W) : 9

LYS14(1) AND SFF(1) AND mRRPE(1) => SimExpr(YOR355W) OR SimExpr(other) : 14 6

EXPR: (0.184) LYS14 (P < 0.000) SFF (P < 0.000) mRRPE (P < 0.046)

ORF	SYMBOL	P	F	C	TF
\|YNL122C\|	NO SYMBOL				ARO80
YMR277W	FCP1	protein amino acid dephosphorylation, transcription -> phosphorus metabolism, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, protein metabolism	protein phosphatase activity, phosphoric monoester hydrolase activity -> hydrolase activity\, acting on ester bonds	nucleus -> nucleus
YHR052W	CIC1	protein catabolism -> catabolism, protein metabolism	protein binding\, bridging -> protein binding\, bridging	nucleolus, proteasome complex (sensu Eukarya) -> nucleus, cytoplasm	HAP4, MATa1
\|YFL039C\|	ACT1	cytokinesis, exocytosis, endocytosis, response to osmotic stress, vacuole inheritance, mitotic spindle orientation, mitochondrion inheritance, cell wall organization and biogenesis, apical bud growth, isotropic bud growth, establishment of cell polarity (sensu Saccharomyces), protein secretion, vesicle transport along actin filament, cell cycle dependent actin filament reorganization, sporulation (sensu Saccharomyces), histone acetylation, regulation of transcription from Pol II promoter -> transport, response to osmotic stress, asexual reproduction, protein secretion, sporulation, transcription, protein metabolism, cell organization and biogenesis, transcription\, DNA-dependent, DNA metabolism, cell proliferation	structural constituent of cytoskeleton -> structural constituent of cytoskeleton	actin filament, actin cable (sensu Saccharomyces), contractile ring (sensu Saccharomyces), actin cortical patch (sensu Saccharomyces), histone acetyltransferase complex -> cytoplasm, site of polarized growth (sensu Fungi), nucleus, cell cortex	DIG1, ROX1, STE12
YML093W	UTP14	processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex
YPR074C	TKL1	pentose-phosphate shunt -> coenzymes and prosthetic group metabolism, alcohol metabolism, water-soluble vitamin metabolism, carbohydrate metabolism, energy derivation by oxidation of organic compounds, catabolism	transketolase activity -> transferase activity\, transferring aldehyde or ketonic groups	cytoplasm -> cytoplasm	REB1
YOR355W	GDS1	aerobic respiration -> energy pathways			FHL1, GCR1, PHD1, RLM1
\|YPL128C\|	TBF1	loss of chromatin silencing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	DNA binding, transcription factor activity -> DNA binding	nuclear chromosome\, telomeric region, nuclear chromosome, nucleus -> chromosome, nucleus
YMR259C	NO SYMBOL				ARG80, GCR2, GTS1, HIR1, SRD1
YGR240C	PFK1	glycolysis -> carbohydrate metabolism, alcohol metabolism, carbohydrate catabolism, energy pathways, catabolism	6-phosphofructokinase activity -> carbohydrate kinase activity, transferase activity\, transferring phosphorus-containing groups	6-phosphofructokinase complex, cytoplasm -> cytoplasm	GCR1, HIR1, HIR2
YOR063W	RPL3	protein biosynthesis, ribosomal large subunit assembly and maintenance -> biosynthesis, cell organization and biogenesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	GRF10(Pho2)
\|YLR328W\|	NMA1	nicotinamide adenine dinucleotide metabolism -> coenzymes and prosthetic group metabolism, vitamin metabolism	nicotinamide-nucleotide adenylyltransferase activity -> transferase activity\, transferring phosphorus-containing groups		CIN5, MSN1, ROX1
YDL140C	RPO21	transcription from Pol II promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	DNA-directed RNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	DNA-directed RNA polymerase II\, core complex -> nucleus	REB1
\|YJR129C\|	NO SYMBOL				DOT6, SIP4
YNL102W	POL1	DNA replication\, priming, DNA replication initiation, lagging strand elongation, DNA repair synthesis -> DNA metabolism, cell proliferation	alpha DNA polymerase activity -> transferase activity\, transferring phosphorus-containing groups	alpha DNA polymerase\:primase complex -> nucleus	LEU3, MBP1
YMR290C	HAS1			nucleolus, nuclear membrane -> nucleus, endomembrane system	RAP1
YPL032C	SVL3	endocytosis -> transport			FKH1, HSF1
YBL092W	RPL32	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleus
\|YAL016W\|	TPD3	protein biosynthesis, actin filament organization, mitotic spindle checkpoint, bud growth, protein amino acid dephosphorylation -> biosynthesis, cell organization and biogenesis, asexual reproduction, phosphorus metabolism, cell proliferation, cell cycle, protein metabolism	protein phosphatase type 2A activity -> hydrolase activity\, acting on ester bonds	protein phosphatase type 2A complex, bud neck, nucleus, cytoplasm, shmoo tip, bud tip, spindle pole body -> protein phosphatase type 2A complex, nucleus, site of polarized growth (sensu Fungi), site of polarized growth (sensu Saccharomyces), cytoplasm, microtubule organizing center	ABF1
Main:		cell organization and biogenesis (0.38)	transferase activity\, transferring phosphorus-containing groups (0.29)	nucleus (0.71)	RAP1 ROX1 GCR1 REB1 FHL1 HIR1 (0.12)
Score:		0.35	0.10	0.71	0.050
P-value:		5.747E-01 (protein amino acid dephosphorylation)	6.260E-02 (nucleotidyltransferase activity)	1.347E-01 (nucleolus)	5.330E-01 (GCR1)

LYS14(1) AND SFF(1) AND mRRPE(1) AND SCB(1) => SimExpr(YOR355W) : 5

LYS14(1) AND PAC(1) => SimExpr(YDR361C) OR SimExpr(other) : 13 6

SFF(1) AND mRRPE(1) AND PAC(1) => SimExpr(YHR052W) OR SimExpr(other) : 33 4

SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YHR052W) OR SimExpr(other) : 39 5

LYS14(1) AND SFF(1) AND mRRPE(1) => SimExpr(YHR052W) OR SimExpr(other) : 14 6

LYS14(1) AND mRRPE(1) AND PAC(1) => SimExpr(YHR052W) : 9

LYS14(1) AND SFF(1) AND mRRPE(1) AND SCB(1) => SimExpr(YHR052W) : 5

SFF(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YHR052W) : 11

SFF'(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YHR052W) : 13

SFF'(1) AND BAS1(1) AND PAC(1) => SimExpr(YLR276C) : 7

EXPR: (0.102) SFF' (P < 0.000) BAS1 (P < 0.000) PAC (P < 0.040)

ORF	SYMBOL	P	F	C	TF
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> ribonucleoside-diphosphate reductase activity	cytoplasm -> cytoplasm	RFX1, STB1
YNR024W	NO SYMBOL
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YCR090C	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> ATP dependent RNA helicase activity	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.75)	ATP dependent RNA helicase activity (0.33)	cytoplasm (0.50)	RTS2 (0.25)
Score:		0.50	0.00	0.33	0.000
P-value:		2.735E-01 (rRNA processing)	2.856E+00 (enzyme activity)	1.997E-01 (nucleolus)	7.308E-01 (RTS2)

mRRPE(1) AND BAS1(1) AND PAC(1) => SimExpr(YLR276C) : 7

EXPR: (0.102) mRRPE (P < 0.001) BAS1 (P < 0.000) PAC (P < 0.061)

ORF	SYMBOL	P	F	C	TF
YNR024W	NO SYMBOL
YMR049C	ERB1	rRNA processing -> rRNA processing			RTG3
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> ribosome biogenesis, rRNA processing		nucleolus -> nucleolus
YCR090C	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> mitochondrial inner membrane	FKH1, FKH2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> ribosomal subunit assembly, rRNA processing	ATP dependent RNA helicase activity -> ATP dependent RNA helicase activity	nucleolus -> nucleolus	MATa1, RCS1, RTG3, SWI5
Main:		rRNA processing (0.75)	ATP dependent RNA helicase activity (0.50)	nucleolus (0.67)	RTG3 (0.50)
Score:		0.50	0.00	0.33	0.167
P-value:		1.302E-02 (rRNA processing)	2.000E+00	1.712E-01 (nucleolus)	3.263E-02 (RTG3)

SFF(1) AND BAS1(1) AND PAC(1) => SimExpr(YLR276C) : 6

EXPR: (0.103) SFF (P < 0.000) BAS1 (P < 0.000) PAC (P < 0.072)

ORF	SYMBOL	P	F	C	TF
YNR024W	NO SYMBOL
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> ribosome biogenesis, rRNA processing		nucleolus -> nucleolus
YCR090C	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> mitochondrial inner membrane	FKH1, FKH2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> ribosomal subunit assembly, rRNA processing	ATP dependent RNA helicase activity -> ATP dependent RNA helicase activity	nucleolus -> nucleolus	MATa1, RCS1, RTG3, SWI5
Main:		rRNA processing (0.67)	ATP dependent RNA helicase activity (0.50)	nucleolus (0.67)	RTS2 (0.33)
Score:		0.33	0.00	0.33	0.000
P-value:		1.990E-01 (rRNA processing)	2.000E+00	1.255E-01 (nucleolus)	5.149E-01 (RTS2)

ALPHA1'(1) AND BAS1(1) AND PAC(1) => SimExpr(YLR276C) : 8

EXPR: (0.102) ALPHA1' (P < 0.000) BAS1 (P < 0.000) PAC (P < 0.042)

ORF	SYMBOL	P	F	C	TF
YIL066C	RNR3	DNA replication -> cell proliferation, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ribonucleoside-diphosphate reductase activity -> ribonucleoside-diphosphate reductase activity	cytoplasm -> cytoplasm	RFX1, STB1
YNR024W	NO SYMBOL
YMR049C	ERB1	rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism			RTG3
YCL059C	KRR1	ribosome biogenesis, rRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism		nucleolus -> nucleus
YCR090C	NO SYMBOL
YBR104W	YMC2	transport -> transport	transporter activity -> transporter activity	mitochondrial inner membrane -> cytoplasm, inner membrane	FKH1, FKH2
YOL022C	NO SYMBOL				MAC1, MOT3, RTS2
YLR276C	DBP9	ribosomal large subunit assembly and maintenance, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	ATP dependent RNA helicase activity -> ATP dependent RNA helicase activity	nucleolus -> nucleus	MATa1, RCS1, RTG3, SWI5
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (0.80)	ATP dependent RNA helicase activity (0.33)	cytoplasm (0.50)	RTG3 (0.40)
Score:		0.60	0.00	0.33	0.100
P-value:		2.040E-02 (rRNA processing)	2.923E+00 (enzyme activity)	2.596E-01 (nucleolus)	5.271E-02 (RTG3)

mRRPE(1) AND BAS1(1) AND PAC(1) => SimExpr(YNR024W) OR SimExpr(other) : 6 1

SFF'(1) AND BAS1(1) AND PAC(1) => SimExpr(YNR024W) OR SimExpr(other) : 6 1

ALPHA1'(1) AND BAS1(1) AND PAC(1) => SimExpr(YNR024W) OR SimExpr(other) : 7 1

SFF(1) AND BAS1(1) AND PAC(1) => SimExpr(YNR024W) OR SimExpr(other) : 5 1

mRRPE(1) AND BAS1(1) AND PAC(1) => SimExpr(YBR104W) OR SimExpr(other) : 5 2

SFF(1) AND mRRPE(1) AND PAC(1) => SimExpr(YOR078W) OR SimExpr(other) : 34 3

SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YOR078W) OR SimExpr(other) : 39 5

PDR(1) AND PAC(1) => SimExpr(YOR078W) OR SimExpr(other) : 6 2

EXPR: (0.164) PDR (P < 0.000) PAC (P < 0.503)

ORF	SYMBOL	P	F	C	TF
YOL041C	NOP12	rRNA metabolism -> RNA metabolism	RNA binding -> RNA binding	nucleolus -> nucleolus	GTS1, MET31
\|YHR083W\|	NO SYMBOL				DIG1, STE12
YDR365C	NO SYMBOL				ABF1, MSS11, YJL206C
\|YNL277W\|	MET2	methionine biosynthesis, homoserine metabolism -> amine biosynthesis, amino acid metabolism, sulfur metabolism	homoserine O-acetyltransferase activity -> transferase activity\, transferring acyl groups	cytoplasm -> cytoplasm	CBF1, MET31, MET4, STE12
YPL068C	NO SYMBOL				CBF1
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YOR078W	BUD21	processing of 20S pre-rRNA -> cytoplasm organization and biogenesis, RNA metabolism, transcription	snoRNA binding -> RNA binding	small nucleolar ribonucleoprotein complex -> nucleolus, ribonucleoprotein complex	ABF1, MSS11, SIG1, SKO1
YDR361C	BCP1				ABF1, ARO80, GLN3, HAP5, IXR1, YAP1
Main:		RNA metabolism (0.67)	RNA binding (0.67)	nucleolus (0.67)	ABF1 (0.38)
Score:		0.33	0.33	0.33	0.214
P-value:		6.760E-01 (RNA metabolism)	5.529E-01 (RNA binding)	2.225E-01 (nucleolus)	9.070E-02 (MET31)

SFF'(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YOR078W) : 13

SFF(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YOR078W) : 11

SFF'(1) AND mRRPE(1) AND PAC(1) => SimExpr(YCL059C) OR SimExpr(other) : 39 5

SFF(1) AND mRRPE(1) AND PAC(1) => SimExpr(YCL059C) OR SimExpr(other) : 34 3

BAS1(1) AND PAC(1) => SimExpr(YCL059C) OR SimExpr(other) : 8 1

SFF'(1) AND BAS1(1) AND PAC(1) => SimExpr(YCL059C) : 7

mRRPE(1) AND BAS1(1) AND PAC(1) => SimExpr(YCL059C) : 7

SFF(1) AND BAS1(1) AND PAC(1) => SimExpr(YCL059C) : 6

ALPHA1'(1) AND BAS1(1) AND PAC(1) => SimExpr(YCL059C) : 8

SFF(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YCL059C) : 11

SFF'(1) AND mRRPE(1) AND PAC(1) AND SCB(1) => SimExpr(YCL059C) : 13

STE12(1) AND PAC(1) => SimExpr(YGR158C) OR SimExpr(other) : 9 2

ALPHA1'(1) AND STE12(1) AND PAC(1) => SimExpr(YGR158C) OR SimExpr(other) : 5 1

SFF'(1) AND STE12(1) AND PAC(1) => SimExpr(YGR158C) OR SimExpr(other) : 5 1

SFF(1) AND mRRPE(1) AND ALPHA2'(1) => SimExpr(YJR025C) OR SimExpr(other) : 5 2

EXPR: (0.221) SFF (P < 0.009) mRRPE (P < 0.106) ALPHA2' (P < 0.016)

ORF	SYMBOL	P	F	C	TF
\|YNL122C\|	NO SYMBOL				ARO80
YJR025C	BNA1	nicotinamide adenine dinucleotide biosynthesis -> coenzymes and prosthetic group metabolism, biosynthesis, water-soluble vitamin metabolism, vitamin metabolism	3-hydroxyanthranilate 3\,4-dioxygenase activity -> 3-hydroxyanthranilate 3\,4-dioxygenase activity	cytoplasm -> cytoplasm	GCN4, SUM1, SWI6
YPR117W	NO SYMBOL				IME4, MBP1, SFP1
YLR175W	CBF5	rRNA modification, 35S primary transcript processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription	pseudouridylate synthase activity -> pseudouridylate synthase activity	small nucleolar ribonucleoprotein complex -> nucleus, ribonucleoprotein complex	AZF1, HAL9
\|YOR295W\|	UAF30	transcription from Pol I promoter -> nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA polymerase I transcription factor activity, ribosomal DNA (rDNA) binding -> RNA polymerase I transcription factor activity, ribosomal DNA (rDNA) binding	RNA polymerase I upstream activating factor complex -> nucleus
YBL092W	RPL32	protein biosynthesis -> biosynthesis, protein metabolism	structural constituent of ribosome -> structural constituent of ribosome	cytosolic large ribosomal subunit (sensu Eukarya) -> cytoplasm, ribonucleoprotein complex	FHL1, RAP1
YDR119W	NO SYMBOL				MSS11, SIG1, SKO1
Main:		biosynthesis (0.50)	ribosomal DNA (rDNA) binding (0.25)	cytoplasm (0.50)	AZF1 (0.17)
Score:		0.33	0.00	0.50	0.000
P-value:		2.039E-01 (transcription from Pol I promoter)	2.856E+00 (enzyme activity)	2.282E-01 (nucleolus)	9.945E-01 (SKO1)

mRRPE(1) AND STE12(1) AND PAC(1) => SimExpr(YAL059W) : 5

mRRPE(1) AND PAC(1) => SimExpr(YML125C) OR SimExpr(other) : 60 25

mRRPE(1) AND SWI5(1) AND PAC(1) AND MCM1'(1) => SimExpr(YML125C) : 5

EXPR: (0.143) mRRPE (P < 0.002) SWI5 (P < 0.000) PAC (P < 0.004) MCM1' (P < 0.000)

ORF	SYMBOL	P	F	C	TF
YDR399W	HPT1	purine nucleotide biosynthesis -> biosynthesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	hypoxanthine phosphoribosyltransferase activity -> hypoxanthine phosphoribosyltransferase activity
YOR310C	NOP58	rRNA modification, 35S primary transcript processing, processing of 20S pre-rRNA -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism, transcription		small nuclear ribonucleoprotein complex, small nucleolar ribonucleoprotein complex -> small nuclear ribonucleoprotein complex, nucleolus, ribonucleoprotein complex	ABF1, SWI6
YML125C	NO SYMBOL				MAL13, MSN4, NDD1, RME1, SWI5
YDR279W	RNH202				GCR2, MBP1, RIM101, RLM1, SWI6, THI2
YGR280C	PXR1	35S primary transcript processing, snRNA processing -> cell organization and biogenesis, nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism	RNA binding -> RNA binding	nucleolus -> nucleolus
Main:		nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism (1.00)	hypoxanthine phosphoribosyltransferase activity (0.50)	nucleolus (1.00)	SWI6 (0.67)
Score:		1.00	0.00	1.00	0.333
P-value:		2.654E-02 (35S primary transcript processing)	2.000E+00	8.582E-02 (nucleolus)	8.946E-02 (SWI6)

SFF'(1) AND GCN4(1) AND Leu3(1) => SimExpr(YJR016C) : 5

EXPR: (0.110) SFF' (P < 0.000) GCN4 (P < 0.002) Leu3 (P < 0.003)

ORF	SYMBOL	P	F	C	TF
YJR016C	ILV3	branched chain family amino acid biosynthesis -> amino acid biosynthesis, branched chain family amino acid metabolism	dihydroxy-acid dehydratase activity -> hydro-lyase activity	mitochondrion -> cytoplasm
YLR355C	ILV5	branched chain family amino acid biosynthesis, mitochondrial genome maintenance -> amino acid biosynthesis, mitochondrion organization and biogenesis, branched chain family amino acid metabolism	ketol-acid reductoisomerase activity -> oxidoreductase activity\, acting on the CH-OH group of donors\, NAD or NADP as acceptor	mitochondrion -> cytoplasm	GCN4, MET4
YGL009C	LEU1	leucine biosynthesis -> amino acid biosynthesis, branched chain family amino acid metabolism	3-isopropylmalate dehydratase activity -> hydro-lyase activity	cytosol -> cytoplasm	LEU3
YDR158W	HOM2	homoserine biosynthesis, threonine metabolism, methionine metabolism -> amino acid biosynthesis, aspartate family amino acid metabolism, homoserine metabolism, serine family amino acid metabolism, sulfur amino acid metabolism	aspartate-semialdehyde dehydrogenase activity -> oxidoreductase activity\, acting on the aldehyde or oxo group of donors\, NAD or NADP as acceptor		ACE2, HSF1, NDD1, REB1, SKN7, SWI5
YOR108W	LEU9	leucine biosynthesis -> amino acid biosynthesis, branched chain family amino acid metabolism	2-isopropylmalate synthase activity -> oxo-acid-lyase activity	mitochondrion -> cytoplasm	AZF1, GCN4, LEU3
Main:		amino acid biosynthesis (1.00)	hydro-lyase activity (0.40)	cytoplasm (1.00)	LEU3 GCN4 (0.50)
Score:		1.00	0.10	1.00	0.333
P-value:		1.808E-08 (branched chain family amino acid biosynthesis)	2.482E-03 (lyase activity)	1.074E-01 (mitochondrion)	1.038E-02 (LEU3)

mRRPE(1) AND zap1(1) => SimExpr(YKR059W) OR SimExpr(other) : 8 3

EXPR: (0.188) mRRPE (P < 0.191) zap1 (P < 0.003)

ORF	SYMBOL	P	F	C	TF
YNL189W	SRP1	nucleocytoplasmic transport -> transport	protein carrier activity -> protein carrier activity	nucleus, cytoplasm -> nucleus, cytoplasm	ABF1, MOT3
YPR117W	NO SYMBOL				IME4, MBP1, SFP1
YKR079C	NO SYMBOL				BAS1
YKR059W	TIF1	translational initiation -> biosynthesis, protein metabolism	translation initiation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	ABF1, FKH1, FKH2
\|YNR060W\|	FRE4	iron-siderochrome transport -> transport	ferric-chelate reductase activity -> oxidoreductase activity\, oxidizing metal ions	plasma membrane -> plasma membrane	NRG1
YLR130C	ZRT2	low-affinity zinc ion transport -> transport	low-affinity zinc ion transporter activity -> cation transporter activity, metal ion transporter activity	plasma membrane -> plasma membrane	ZAP1
YMR130W	NO SYMBOL
YPR080W	TEF1	translational elongation -> biosynthesis, protein metabolism	translation elongation factor activity -> translation factor activity\, nucleic acid binding	ribosome -> cytoplasm, ribonucleoprotein complex	FHL1, PDR1, RAP1, YAP5
YLR355C	ILV5	branched chain family amino acid biosynthesis, mitochondrial genome maintenance -> amine metabolism, cell organization and biogenesis, amino acid and derivative metabolism, organic acid metabolism, biosynthesis	ketol-acid reductoisomerase activity -> oxidoreductase activity\, acting on CH-OH group of donors	mitochondrion -> cytoplasm	GCN4, MET4
\|YCR044C\|	PER1	manganese ion homeostasis, response to unfolded protein -> response to biotic stimulus, cell homeostasis		vacuolar membrane (sensu Fungi) -> cytoplasm, vacuole	YFL044C
\|YJR122W\|	CAF17				YAP1
Main:		biosynthesis (0.43)	translation factor activity\, nucleic acid binding (0.33)	cytoplasm (0.71)	ABF1 (0.20)
Score:		0.29	0.07	0.52	0.022
P-value:		3.837E+00 (protein biosynthesis)	1.679E-01 (translation factor activity\, nucleic acid binding)	1.863E+00 (plasma membrane)	1.000E+00

mRRPE(1) AND PAC(1) => SimExpr(YHR089C) OR SimExpr(other) : 73 12

mRRPE(1) AND STE12(1) AND PAC(1) => SimExpr(YMR310C) : 5

mRRPE(1) AND STE12(1) AND PAC(1) => SimExpr(YBR247C) : 5

AVERAGE SCORES:

P
  SCORE: 0.505 (Part of genes covered by "Main": 0.640) (No. rules=147/150)
  P-VALUE: 0.429
F
  SCORE: 0.212 (Part of genes covered by "Main": 0.452) (No. rules=139/150)
  P-VALUE: 0.302
C
  SCORE: 0.611 (Part of genes covered by "Main": 0.724) (No. rules=142/150)
  P-VALUE: 0.444
TF
  SCORE: 0.246 (Part of genes covered by "Main": 0.431) (No. rules=148/150)
  P-VALUE: 0.291
EXPRESSION: 0.533 (150)

Discovering regulatory binding-site modules using rule-based learning

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