Overrepresented Gene Annotations in Network Clusters
|
Cluster |
Top overrepresented gene annotationa |
-log10Pb |
|---|---|---|
| ACT1 | cytoskeleton organization and biogenesis | 12 |
| CDC28 | cell cycle | 8.9 |
| STE11 | development | 7.7 |
| PDE2 | phospholipid metabolism | 7.4 |
| TOM7 | mitochondrial translocation | 6.5 |
| ERG11 | ergosterol biosynthesis | 6.0 |
| CAP | arginine biosynthesis | 5.9 |
| NH3xt | ammonium transport | 5.9 |
| SPH | sphingolipid metabolism | 5.9 |
| ACP1 | energy derivation by oxidation of organic compounds | 5.6 |
| BNA6 | nucleocytoplasmic transport | 5.5 |
| PMT2 | glycoprotein biosynthesis | 5.5 |
| 13PDG | glycolysis | 5.3 |
| PMA1 | cation transport | 4.7 |
| RPP1B | translational elongation | 4.3 |
| RAD51 | nuclear division | 4.1 |
| AGA2 | cell adhesion | 4.0 |
| FTR1 | high-affinity iron transport | 4.0 |
| GDPMAN | N-linked glycosylation | 4.0 |
| HMLα2 | regulation of transcription, mating-type specific | 4.0 |
| DAL2 | allantoin catabolism | 3.6 |
| SNF1 | regulation of transcription from Pol II promoter | 3.5 |
| BCY1 | pseudohyphal growth | 3.4 |
| ACAL | pyruvate dehydrogenase bypass | 3.3 |
| DIP5 | aspartate family amino acid catabolism | 3.3 |
| YIP1 | ER to Golgi transport | 3.2 |
| ERG6 | methionine metabolism | 3.1 |
| POX1 | glyoxylate cycle | 3.0 |
| RPN12 | ubiquitin-dependent protein catabolism | 2.9 |
| BAP2 | amino acid transport | 2.7 |
| FKH1 | regulation of transcription, DNA-dependent | 2.2 |
| HSL7 | G2/M transition of mitotic cell cycle | 2.1 |
| GRR1 | ubiquitin-dependent protein catabolism | 2.0 |
| SXM1 | protein biosynthesis | 2.0 |
| APP2 | protein transport | 2.0 |
| ACS1 | carboxylic acid metabolism | 1.8 |
| ILV2 | amino acid biosynthesis | 1.8 |
| AAT2 | amino acid and derivative metabolism | 1.6 |
| MET17 | carboxylic acid metabolism | 1.4 |
| YBL101W-A | [Ty element] | N/A |
| YDR261W-A | [Ty element] | N/A |
| YPR158W-A | [Ty element] | N/A |
| CHS1 | [chitin synthesis] | N/A |
| GTR1 | [phosphate metabolism] | N/A |
| AAH1 | [nucleotide base catabolism] | N/A |
| ADE5,7 | N/A | N/A |
| MGA1
|
N/A
|
N/A
|
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↵a Biological-process gene annotations were from the Gene Ontology Consortium database version 1.608. Each listed annotation applied to at least two cluster member genes, and showed significant (-log10p > 1.3; P < 0.05) overrepresentation in the cluster compared to random expectation. For most clusters, several annotations were significantly over-represented. In these cases, annotations with the highest significance are listed. Some clusters showed no annotations meeting the criteria and were annotated manually (indicated by brackets).
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↵b Significance (-log10 cumulative probability of the observed data and all more extreme possibilities) was calculated using the hypergeometric distribution and: (1) the total number of proteins in all clusters, 259; (2) the number of proteins in all clusters with the annotation; (3) the number of proteins in the cluster; and (4) the number of proteins with the annotation in the cluster.
