Skip to main content

Table 1 Frequency of GO terms for each group of 'new genes'

From: New genes in the evolution of the neural crest differentiation program

GO ID GO term Count sample Count total P
Prokaryota     
   GO:0050875 Cellular physiological process 3,219 8,198 0
   GO:0008152 Metabolism 2,576 5,906 0
   GO:0044237 Cellular metabolism 2,369 5,566 0
   GO:0044238 Primary metabolism 2,192 5,312 0
   GO:0043170 Macromolecule metabolism 1,569 3,298 0
   GO:0044260 Cellular macromolecule metabolism 1,158 2,500 0
   GO:0019538 Protein metabolism 1,149 2,486 0
   GO:0044267 Cellular protein metabolism 1,138 2,469 0
   GO:0000166 Nucleotide binding 1,070 1,577 0
   GO:0016787 Hydrolase activity 1,037 1,876 0
Eukaryota     
   GO:0005622 Intracellular 1,820 6,664 0
   GO:0043226 Organelle 1,587 5,789 0
   GO:0043229 Intracellular organelle 1,586 5,785 0
   GO:0043227 Membrane-bound organelle 1,419 5,097 0
   GO:0043231 Intracellular membrane-bound organelle 1,417 5,092 0
   GO:0005634 Nucleus 1,054 3,267 0
   GO:0046914 Transition metal ion binding 644 1,791 0
   GO:0008270 Zinc ion binding 619 1,416 0
   GO:0004888 Transmembrane receptor activity 23 2,007 0
   GO:0043169 Cation binding 799 2,589 3.45 × e-85
Metazoa     
   GO:0016020 Membrane 1,768 6,163 0
   GO:0031224 Intrinsic to membrane 1,524 4,932 0
   GO:0016021 Integral to membrane 1,523 4,930 0
   GO:0007154 Cell communication 1,234 3,201 0
   GO:0007165 Signal transduction 1,211 3,059 0
   GO:0004872 Receptor activity 1,143 2,793 0
   GO:0007166 Cell surface receptor linked signal transduction 1,061 2,253 0
   GO:0004888 Transmembrane receptor activity 926 2,007 0
   GO:0007186 G-protein coupled receptor protein signaling pathway 906 1,763 0
   GO:0004930 G-protein coupled receptor activity 870 1,693 0
Deuterostomia     
   GO:0004931 ATP-gated cation channel activity 5 6 4.74 × e-05
   GO:0009607 Response to biotic stimulus 45 979 0.00100739
   GO:0006952 Defense response 44 950 0.00100739
   GO:0004800 Thyroxine 5'-deiodinase activity 3 3 0.002093473
   GO:0030106 MHC class I receptor activity 5 15 0.002209497
   GO:0006955 Immune response 35 736 0.002495027
   GO:0030178 Negative regulation of Wnt receptor signaling pathway 4 9 0.003585659
   GO:0042981 Regulation of apoptosis 16 246 0.003971402
   GO:0008430 Selenium binding 6 29 0.004113225
   GO:0008517 Folic acid transporter activity 3 4 0.004113225
Chordata     
   GO:0005911 Intercellular junction 38 131 5.96 × e-33
   GO:0005921 Gap junction 20 24 1.97 × e-29
   GO:0030054 Cell junction 38 164 2.28 × e-29
   GO:0005922 Connexon complex 17 18 2.57 × e-27
   GO:0005243 Gap-junction forming channel activity 17 18 2.57 × e-27
   GO:0015285 Connexon channel activity 17 18 2.57 × e-27
   GO:0005923 Tight junction 17 60 2.44 × e-14
   GO:0016327 Apicolateral plasma membrane 17 76 1.45 × e-12
   GO:0043296 Apical junction complex 17 76 1.45 × e-12
   GO:0005615 Extracellular space 74 2,021 7.43 × e-10
Vertebrata     
   GO:0005102 Receptor binding 130 507 0
   GO:0016503 Pheromone receptor activity 59 111 0
   GO:0005179 Hormone activity 53 115 0
   GO:0042221 Response to chemical stimulus 90 329 9.81 × e-79
   GO:0009628 Response to abiotic stimulus 92 414 2.94 × e-59
   GO:0005615 Extracellular space 230 2,021 1.24 × e-45
   GO:0005550 Pheromone binding 50 94 1.49 × e-38
   GO:0005125 Cytokine activity 52 212 5.02 × e-38
   GO:0005549 Odorant binding 50 99 3.45 × e-37
   GO:0001664 G-protein-coupled receptor binding 36 47 3.23 × e-36
Mammalia     
   GO:0005615 Extracellular space 198 2,021 6.14 × e-53
   GO:0005102 Receptor binding 80 507 1.79 × e-46
   GO:0005125 Cytokine activity 48 212 1.79 × e-46
   GO:0009607 Response to biotic stimulus 104 979 1.03 × e-30
   GO:0006952 Defense response 102 950 1.03 × e-30
   GO:0042742 Defense response to bacteria 34 70 2.51 × e-28
   GO:0009617 Response to bacteria 34 78 2.22 × e-26
   GO:0005126 Hematopoietin/interferon-class (D200-domain) cytokine receptor binding 20 33 6.10 × e-19
   GO:0008083 Growth factor activity 26 141 2.98 × e-18
   GO:0051707 Response to other organism 60 594 1.67 × e-15
  1. The table summarizes the 10 most statistically overrepresented Gene Ontology (GO) annotations for genes belonging to each of the seven categories. We only considered GO terms for which P > 0.001 and count sample was above 15.