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Association of Gene Ontology Categories with Decay Rate for Hepg2 Experiments These Tables Show Details for All Gene Ontology Categories

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Association of Gene Ontology Categories with Decay Rate for Hepg2 Experiments These Tables Show Details for All Gene Ontology Categories Supplementary Table 1: Association of Gene Ontology Categories with Decay Rate for HepG2 Experiments These tables show details for all Gene Ontology categories. Inferences for manual classification scheme shown at the bottom. Those categories used in Figure 1A are highlighted in bold. Standard Deviations are shown in parentheses. P-values less than 1E-20 are indicated with a "0". Rate r (hour^-1) Half-life < 2hr. Decay % GO Number Category Name Probe Sets Group Non-Group Distribution p-value In-Group Non-Group Representation p-value GO:0006350 transcription 1523 0.221 (0.009) 0.127 (0.002) FASTER 0 13.1 (0.4) 4.5 (0.1) OVER 0 GO:0006351 transcription, DNA-dependent 1498 0.220 (0.009) 0.127 (0.002) FASTER 0 13.0 (0.4) 4.5 (0.1) OVER 0 GO:0006355 regulation of transcription, DNA-dependent 1163 0.230 (0.011) 0.128 (0.002) FASTER 5.00E-21 14.2 (0.5) 4.6 (0.1) OVER 0 GO:0006366 transcription from Pol II promoter 845 0.225 (0.012) 0.130 (0.002) FASTER 1.88E-14 13.0 (0.5) 4.8 (0.1) OVER 0 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism3004 0.173 (0.006) 0.127 (0.002) FASTER 1.28E-12 8.4 (0.2) 4.5 (0.1) OVER 0 GO:0006357 regulation of transcription from Pol II promoter 487 0.231 (0.016) 0.132 (0.002) FASTER 6.05E-10 13.5 (0.6) 4.9 (0.1) OVER 0 GO:0008283 cell proliferation 625 0.189 (0.014) 0.132 (0.002) FASTER 1.95E-05 10.1 (0.6) 5.0 (0.1) OVER 1.50E-20 GO:0006513 monoubiquitination 36 0.305 (0.049) 0.134 (0.002) FASTER 2.69E-04 25.4 (4.4) 5.1 (0.1) OVER 2.04E-06 GO:0007050 cell cycle arrest 57 0.311 (0.054) 0.133 (0.002) FASTER 4.83E-04 16.1 (0.7) 5.1 (0.1) OVER 0 GO:0000074 regulation of cell cycle 575 0.178 (0.014) 0.133 (0.002) FASTER 6.18E-04 7.7 (0.5) 5.0 (0.1) OVER 2.29E-07 GO:0007178 transmembrane receptor protein serine/threonine kinase signaling48 pathway0.316 (0.057) 0.134 (0.002) FASTER 6.58E-04 21.8 (3.8) 5.1 (0.1) OVER 4.44E-06 GO:0007179 TGFbeta receptor signaling pathway 44 0.301 (0.055) 0.134 (0.002) FASTER 1.19E-03 19.7 (3.8) 5.1 (0.1) OVER 7.31E-05 GO:0042127 regulation of cell proliferation 295 0.190 (0.020) 0.133 (0.002) FASTER 2.23E-03 12.2 (0.9) 5.0 (0.1) OVER 2.26E-15 GO:0006596 polyamine biosynthesis 36 0.239 (0.038) 0.134 (0.002) FASTER 3.07E-03 27.2 (1.9) 5.1 (0.1) OVER 0 GO:0008285 negative regulation of cell proliferation 167 0.215 (0.031) 0.133 (0.002) FASTER 3.73E-03 14.1 (1.2) 5.1 (0.1) OVER 3.06E-15 GO:0000079 regulation of CDK activity 100 0.225 (0.035) 0.134 (0.002) FASTER 4.81E-03 11.5 (1.4) 5.1 (0.1) OVER 3.01E-06 GO:0006367 transcription initiation from Pol II promoter 78 0.254 (0.046) 0.133 (0.002) FASTER 4.89E-03 14.1 (2.8) 5.1 (0.1) OVER 5.36E-04 GO:0006915 apoptosis 428 0.175 (0.017) 0.133 (0.002) FASTER 6.35E-03 7.1 (0.6) 5.1 (0.1) OVER 2.30E-04 GO:0012501 programmed cell death 428 0.175 (0.017) 0.133 (0.002) FASTER 6.35E-03 7.1 (0.6) 5.1 (0.1) OVER 2.30E-04 GO:0006352 transcription initiation 86 0.241 (0.043) 0.134 (0.002) FASTER 6.65E-03 12.8 (2.5) 5.1 (0.1) OVER 0.001 GO:0000086 G2/M transition of mitotic cell cycle 112 0.214 (0.032) 0.134 (0.002) FASTER 6.75E-03 11.9 (1.3) 5.1 (0.1) OVER 9.23E-08 GO:0006512 ubiquitin cycle 184 0.183 (0.020) 0.134 (0.002) FASTER 6.98E-03 7.4 (1.2) 5.1 (0.1) NO SIG 0.025 GO:0007275 development 1082 0.156 (0.009) 0.133 (0.002) FASTER 9.16E-03 6.7 (0.3) 5.0 (0.1) OVER 8.01E-07 GO:0007049 cell cycle 1204 0.155 (0.009) 0.133 (0.002) NO SIG 0.011 6.7 (0.4) 5.0 (0.1) OVER 8.41E-06 GO:0006595 polyamine metabolism 40 0.215 (0.035) 0.134 (0.002) NO SIG 0.011 24.5 (1.7) 5.1 (0.1) OVER 0 GO:0019748 secondary metabolism 40 0.215 (0.035) 0.134 (0.002) NO SIG 0.011 24.5 (1.7) 5.1 (0.1) OVER 0 GO:0009653 morphogenesis 613 0.161 (0.012) 0.133 (0.002) NO SIG 0.012 7.4 (0.4) 5.1 (0.1) OVER 1.49E-07 GO:0009887 organogenesis 613 0.161 (0.012) 0.133 (0.002) NO SIG 0.012 7.4 (0.4) 5.1 (0.1) OVER 1.49E-07 GO:0007397 histogenesis and organogenesis 101 0.220 (0.038) 0.134 (0.002) NO SIG 0.012 14.8 (1.3) 5.1 (0.1) OVER 6.88E-14 GO:0008219 cell death 448 0.169 (0.016) 0.133 (0.002) NO SIG 0.013 6.7 (0.5) 5.1 (0.1) OVER 0.001 GO:0042401 biogenic amine biosynthesis 56 0.213 (0.036) 0.134 (0.002) NO SIG 0.013 20.3 (1.6) 5.1 (0.1) OVER 0 GO:0006468 protein amino acid phosphorylation 729 0.160 (0.012) 0.133 (0.002) NO SIG 0.014 6.0 (0.5) 5.1 (0.1) NO SIG 0.028 GO:0016265 death 455 0.167 (0.016) 0.133 (0.002) NO SIG 0.017 6.6 (0.5) 5.1 (0.1) OVER 0.002 GO:0016071 mRNA metabolism 43 0.228 (0.045) 0.134 (0.002) NO SIG 0.019 5.8 (2.7) 5.1 (0.1) NO SIG 0.409 GO:0008099 synaptic vesicle endocytosis 37 0.237 (0.052) 0.134 (0.002) NO SIG 0.023 18.2 (2.8) 5.1 (0.1) OVER 2.00E-06 GO:0042398 amino acid derivative biosynthesis 60 0.201 (0.034) 0.134 (0.002) NO SIG 0.023 18.9 (1.5) 5.1 (0.1) OVER 0 GO:0006298 mismatch repair 37 0.242 (0.055) 0.134 (0.002) NO SIG 0.024 11.2 (3.4) 5.1 (0.1) NO SIG 0.036 GO:0045005 maintenance of fidelity during DNA dependent DNA replication37 0.242 (0.055) 0.134 (0.002) NO SIG 0.024 11.2 (3.4) 5.1 (0.1) NO SIG 0.036 GO:0000278 mitotic cell cycle 719 0.156 (0.012) 0.133 (0.002) NO SIG 0.029 6.6 (0.5) 5.1 (0.1) OVER 0.002 GO:0000122 negative regulation of transcription from Pol II promoter 100 0.201 (0.036) 0.134 (0.002) NO SIG 0.032 15.0 (1.5) 5.1 (0.1) OVER 1.73E-11 GO:0016481 negative regulation of transcription 100 0.201 (0.036) 0.134 (0.002) NO SIG 0.032 15.0 (1.5) 5.1 (0.1) OVER 1.73E-11 GO:0016310 phosphorylation 765 0.155 (0.012) 0.133 (0.002) NO SIG 0.033 5.8 (0.5) 5.1 (0.1) NO SIG 0.083 GO:0000082 G1/S transition of mitotic cell cycle 165 0.182 (0.026) 0.134 (0.002) NO SIG 0.034 7.9 (1.0) 5.1 (0.1) OVER 0.004 GO:0006511 ubiquitin-dependent protein degradation 320 0.159 (0.014) 0.134 (0.002) NO SIG 0.039 6.1 (0.8) 5.1 (0.1) NO SIG 0.104 GO:0000087 M phase of mitotic cell cycle 257 0.167 (0.019) 0.134 (0.002) NO SIG 0.041 7.8 (0.9) 5.1 (0.1) OVER 8.30E-04 GO:0007067 mitosis 253 0.166 (0.019) 0.134 (0.002) NO SIG 0.047 8.0 (0.9) 5.1 (0.1) OVER 6.04E-04 GO:0006796 phosphate metabolism 1021 0.150 (0.010) 0.133 (0.002) NO SIG 0.050 5.4 (0.4) 5.1 (0.1) NO SIG 0.207 GO:0007369 gastrulation 27 0.244 (0.070) 0.134 (0.002) NO SIG 0.057 10.9 (4.8) 5.1 (0.1) NO SIG 0.113 GO:0009790 embryonic development 27 0.244 (0.070) 0.134 (0.002) NO SIG 0.057 10.9 (4.8) 5.1 (0.1) NO SIG 0.113 GO:0009792 embryonic development (sensu Animalia) 27 0.244 (0.070) 0.134 (0.002) NO SIG 0.057 10.9 (4.8) 5.1 (0.1) NO SIG 0.113 GO:0019941 protein-ligand dependent protein degradation 328 0.156 (0.014) 0.134 (0.002) NO SIG 0.058 6.0 (0.8) 5.1 (0.1) NO SIG 0.137 GO:0006360 transcription from Pol I promoter 48 0.193 (0.038) 0.134 (0.002) NO SIG 0.060 10.1 (2.0) 5.1 (0.1) OVER 0.006 GO:0007093 mitotic checkpoint 32 0.204 (0.046) 0.134 (0.002) NO SIG 0.065 4.3 (2.7) 5.1 (0.1) NO SIG 0.383 GO:0000280 nuclear division 304 0.162 (0.018) 0.134 (0.002) NO SIG 0.065 7.2 (0.8) 5.1 (0.1) OVER 0.004 GO:0007020 microtubule nucleation 50 0.209 (0.050) 0.134 (0.002) NO SIG 0.067 7.8 (1.6) 5.1 (0.1) NO SIG 0.048 GO:0000279 M phase 320 0.160 (0.018) 0.134 (0.002) NO SIG 0.072 6.8 (0.7) 5.1 (0.1) NO SIG 0.011 GO:0000075 cell cycle checkpoint 71 0.191 (0.039) 0.134 (0.002) NO SIG 0.072 5.7 (2.1) 5.1 (0.1) NO SIG 0.390 GO:0007276 gametogenesis 140 0.173 (0.028) 0.134 (0.002) NO SIG 0.082 8.6 (0.9) 5.1 (0.1) OVER 9.62E-05 GO:0009888 histogenesis 86 0.184 (0.037) 0.134 (0.002) NO SIG 0.086 7.2 (1.7) 5.1 (0.1) NO SIG 0.109 GO:0007021 tubulin folding 32 0.224 (0.067) 0.134 (0.002) NO SIG 0.088 10.2 (1.6) 5.1 (0.1) OVER 7.76E-04 GO:0007323 pheromone processing 43 0.195 (0.046) 0.134 (0.002) NO SIG 0.092 8.4 (1.5) 5.1 (0.1) NO SIG 0.015 GO:0016485 protein processing 43 0.195 (0.046) 0.134 (0.002) NO SIG 0.092 8.4 (1.5) 5.1 (0.1) NO SIG 0.015 GO:0006879 iron homeostasis 40 0.199 (0.049) 0.134 (0.002) NO SIG 0.093 12.5 (0.0) 5.1 (0.1) OVER 0 GO:0006383 transcription from Pol III promoter 42 0.211 (0.061) 0.134 (0.002) NO SIG 0.104 4.8 (2.3) 5.1 (0.1) NO SIG 0.436 GO:0006974 response to DNA damage 83 0.197 (0.052) 0.134 (0.002) NO SIG 0.111 9.9 (1.4) 5.1 (0.1) OVER 4.96E-04 GO:0007167 enzyme linked receptor protein signaling pathway 173 0.161 (0.023) 0.134 (0.002) NO SIG 0.113 7.6 (1.2) 5.1 (0.1) NO SIG 0.021 GO:0009611 response to wounding 147 0.169 (0.029) 0.134 (0.002) NO SIG 0.114 8.8 (1.2) 5.1 (0.1) OVER 0.001 GO:0008625 induction of apoptosis via death domain receptors 35 0.206 (0.060) 0.134 (0.002) NO SIG 0.116 6.4 (2.1) 5.1 (0.1) NO SIG 0.283 GO:0007089 start control point of mitotic cell cycle 32 0.216 (0.069) 0.134 (0.002) NO SIG 0.117 6.2 (3.4) 5.1 (0.1) NO SIG 0.374 GO:0001501 skeletal development 122 0.167 (0.029) 0.134 (0.002) NO SIG 0.124 10.6 (1.0) 5.1 (0.1) OVER 5.89E-08 GO:0000003 reproduction 165 0.162 (0.025) 0.134 (0.002) NO SIG 0.125 7.4 (0.8) 5.1 (0.1) OVER 0.003 GO:0007324 a-factor processing (proteolytic) 35 0.197 (0.055) 0.134 (0.002) NO SIG 0.127 10.3 (1.9) 5.1 (0.1) OVER 0.003 GO:0009292 genetic exchange 55 0.178 (0.040) 0.134 (0.002) NO SIG 0.130 6.6 (1.2) 5.1 (0.1) NO SIG 0.111 GO:0007283 spermatogenesis 94 0.175 (0.037) 0.134 (0.002) NO SIG 0.131 10.5 (1.0) 5.1 (0.1) OVER 2.23E-08 GO:0008371 obsolete 436 0.152 (0.017) 0.134 (0.002) NO SIG 0.135 6.4 (0.6) 5.1 (0.1) NO SIG 0.019 GO:0006464 protein modification 1436 0.143 (0.008) 0.133 (0.002) NO SIG 0.135 4.7 (0.3) 5.2 (0.1) NO SIG 0.086 GO:0006261 DNA dependent DNA replication 171 0.161 (0.025) 0.134 (0.002) NO SIG 0.141 5.0 (1.1) 5.1 (0.1) NO SIG 0.437 GO:0006576 biogenic amine metabolism 75 0.165 (0.029) 0.134 (0.002) NO SIG 0.141 15.2 (1.2) 5.1 (0.1) OVER 4.43E-18 GO:0008284 positive regulation of cell proliferation
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