Transposon-free regions in mammalian genomes

Table 3.

Gene ontology (GO) categories of human genes overlapping TFRs

GO
Description
Na
Expb
Obsc
Foldd
Pe
Molecular function:
   GO:0003700 transcription factor activity 786 38 167 4.4 <10-66
   GO:0030528 transcription regulator activity 1106 53 195 3.6 <10-63
   GO:0003677 DNA binding 1755 85 235 2.8 <10-55
   GO:0003676 nucleic acid binding 2764 134 286 2.1 <10-45
Biological process:
   GO:0045449 regulation of transcription 1738 83 244 2.9 <10-64
   GO:0019219 regulation of nucleic acid metabolism 1762 85 244 2.9 <10-62
   GO:0006355 regulation of transcription, DNA-dependent 1665 80 233 2.9 <10-60
   GO:0006350 transcription 1818 87 244 2.8 <10-59
   GO:0031323 regulation of cellular metabolism 1874 90 246 2.7 <10-58
   GO:0006351 transcription, DNA-dependent 1720 83 234 2.8 <10-58
   GO:0019222 regulation of metabolism 1927 92 247 2.7 <10-56
   GO:0050789 regulation of biological process 2929 141 301 2.1 <10-50
   GO:0050794 regulation of cellular process 2731 131 287 2.2 <10-49
   GO:0050791 regulation of physiological process 2682 129 283 2.2 <10-48
   GO:0051244 regulation of cellular physiological process 2599 125 277 2.2 <10-48
   GO:0007275 development 1723 83 201 2.4 <10-37
   GO:0009653 morphogenesis 1088 52 130 2.5 <10-24
   GO:0009887 organogenesis 850 41 103 2.5 <10-19
   GO:0048513 organ development 903 43 104 2.4 <10-18
   GO:0007399
neurogenesis
389
19
61
3.3
<10-16

  • ↵a Total number of genes in genome assigned to this GO category

  • ↵b Expected number of genes overlapping with TFRs

  • ↵c Observed number of genes overlapping with TFRs

  • ↵d Fold enrichment of observed over expected

  • ↵e P-values

This Article

  1. Published in Advance December 19, 2005, doi: 10.1101/gr.4624306 Genome Res. 16: 164-172

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