"Supplemental Table S2: Proteins in cluster 2 were tested for significantly enriched terms (p<0.05, BH corrected). Minimum number of 5 proteins carrying respective terms." Cluster ID Type Name P value Enrichment Total In cluster Cluster size Benj. Hoch. FDR 2 GOBP name nucleobase-containing compound metabolic process 2.32E-21 1.6786 299 160 314 1.08E-17 2 Keywords Cytoplasm 2.32E-19 1.4923 412 196 314 2.09E-17 2 Keywords Nucleus 3.35E-18 1.724 242 133 314 2.52E-16 2 GOMF name nucleic acid binding 1.35E-18 1.7706 225 127 314 1.63E-15 2 GOBP name nucleic acid metabolic process 4.51E-18 1.7253 240 132 314 1.05E-14 2 GOBP name cellular nitrogen compound metabolic process 2.96E-17 1.5498 336 166 314 4.58E-14 2 GOBP name RNA metabolic process 4.73E-17 1.759 214 120 314 5.49E-14 2 GOCC name nuclear part 2.72E-16 1.7149 225 123 314 5.98E-14 2 Keywords Phosphoprotein 3.20E-14 1.2692 608 246 314 1.80E-12 2 GOBP name nitrogen compound metabolic process 2.62E-15 1.4968 350 167 314 2.43E-12 2 Keywords RNA-binding 2.17E-13 2.0499 101 66 314 1.09E-11 2 GOMF name RNA binding 5.46E-14 1.7925 168 96 314 3.30E-11 2 GOCC name cytosol 4.59E-13 1.4854 321 152 314 6.06E-11 2 GOCC name macromolecular complex 3.46E-12 1.3464 452 194 314 2.28E-10 2 GOMF name nucleotide binding 1.35E-12 1.5395 271 133 314 5.45E-10 2 Keywords Acetylation 2.39E-11 1.2957 506 209 314 9.82E-10 2 GOCC name nucleoplasm 1.43E-10 1.9068 102 62 314 7.85E-09 2 GOBP name mRNA processing 6.18E-11 2.2967 56 41 314 4.78E-08 2 Keywords Proteinbiosynthesis 1.98E-09 2.3527 44 33 314 6.38E-08 2 GOBP name cellular macromolecule metabolic process 1.76E-10 1.3533 401 173 314 1.16E-07 2 Keywords ATP-binding 8.97E-09 1.67 139 74 314 2.53E-07 2 GOMF name DNA binding 1.05E-09 1.956 85 53 314 3.18E-07 2 GOBP name RNA processing 5.57E-10 1.9793 84 53 314 3.23E-07 2 GOCC name cytoplasm 8.15E-09 1.481 233 110 314 3.59E-07 2 GOBP name regulation of macromolecule metabolic process 9.30E-10 1.4727 262 123 314 4.79E-07 2 Keywords mRNAprocessing 3.04E-08 2.2025 47 33 314 8.07E-07 2 GOMF name ATP binding 4.74E-09 1.6521 150 79 314 9.54E-07 2 GOBP name RNA splicing 2.23E-09 2.2586 50 36 314 1.03E-06 2 GOMF name adenyl ribonucleotide binding 4.64E-09 1.6393 155 81 314 1.12E-06 2 GOBP name regulation of cellular metabolic process 2.77E-09 1.4469 271 125 314 1.17E-06 2 GOMF name adenyl nucleotide binding 6.94E-09 1.6288 156 81 314 1.20E-06 2 GOBP name "RNA splicing, via transesterification reactions" 4.14E-09 2.413 39 30 314 1.48E-06 2 GOBP name regulation of primary metabolic process 3.96E-09 1.4543 261 121 314 1.53E-06 2 Keywords mRNAsplicing 7.31E-08 2.2101 44 31 314 1.73E-06 2 GOBP name regulation of cellular macromolecule biosynthetic process 5.76E-09 1.6402 153 80 314 1.91E-06 2 GOBP name mRNA metabolic process 7.25E-09 1.6544 146 77 314 2.10E-06 2 GOBP name regulation of macromolecule biosynthetic process 6.94E-09 1.6288 156 81 314 2.15E-06 2 GOBP name "RNA splicing, via transesterification reactions with bulged adenosine as nucleophile" 1.06E-08 2.394 38 29 314 2.73E-06 2 GOBP name "nuclear mRNA splicing, via spliceosome" 1.06E-08 2.394 38 29 314 2.89E-06 2 KEGG name RNA transport 1.28E-08 2.5961 29 24 314 2.90E-06 2 GOBP name regulation of gene expression 1.47E-08 1.5685 176 88 314 3.60E-06 2 GOBP name regulation of nitrogen compound metabolic process 1.83E-08 1.5685 174 87 314 4.26E-06 2 GOBP name primary metabolic process 2.30E-08 1.2218 552 215 314 5.08E-06 2 Keywords Proteasome 2.51E-07 2.5337 26 21 314 5.65E-06 2 GOCC name catalytic step 2 spliceosome 2.51E-07 2.5337 26 21 314 8.70E-06 2 GOCC name nucleus 3.99E-07 1.4284 224 102 314 1.32E-05 2 Keywords Initiationfactor 6.39E-07 2.7884 18 16 314 1.37E-05 2 GOBP name response to DNA damage stimulus 6.82E-08 2.1566 48 33 314 1.44E-05 2 GOBP name cellular metabolic process 8.00E-08 1.2069 564 217 314 1.61E-05 2 GOMF name ribonucleotide binding 2.14E-07 1.4744 200 94 314 2.88E-05 2 GOMF name purine ribonucleoside triphosphate binding 2.42E-07 1.48 195 92 314 2.93E-05 2 GOCC name microtubule 9.86E-07 2.2407 35 25 314 2.96E-05 2 GOBP name regulation of cellular biosynthetic process 1.54E-07 1.5403 167 82 314 2.98E-05 2 GOBP name macromolecule metabolic process 1.64E-07 1.2619 440 177 314 3.05E-05 2 GOCC name spliceosomal complex 9.77E-07 2.2814 33 24 314 3.07E-05 2 GOBP name regulation of metabolic process 1.72E-07 1.3625 297 129 314 3.08E-05 2 GOMF name purine nucleotide binding 2.90E-07 1.467 201 94 314 3.18E-05 2 GOMF name purine ribonucleotide binding 2.14E-07 1.4744 200 94 314 3.24E-05 2 Keywords Nucleotide-binding 1.80E-06 1.4453 191 88 314 3.53E-05 2 GOBP name regulation of biosynthetic process 2.43E-07 1.5226 171 83 314 4.18E-05 2 GOCC name protein complex 1.70E-06 1.3047 327 136 314 4.50E-05 2 GOBP name cell cycle phase 2.74E-07 2.0511 52 34 314 4.54E-05 2 GOBP name mitotic anaphase 3.50E-07 2.405 30 23 314 5.41E-05 2 GOBP name anaphase 3.50E-07 2.405 30 23 314 5.59E-05 2 GOMF name translation initiation factor activity 6.39E-07 2.7884 18 16 314 6.44E-05 2 GOBP name regulation of RNA metabolic process 4.99E-07 1.6049 129 66 314 7.46E-05 2 Keywords DNA-binding 4.20E-06 1.8513 61 36 314 7.90E-05 2 GOBP name S phase of mitotic cell cycle 6.61E-07 2.5096 25 20 314 9.29E-05 2 Keywords Spliceosome 5.47E-06 2.2262 31 22 314 9.48E-05 2 GOBP name positive regulation of cell cycle arrest 6.61E-07 2.5096 25 20 314 9.58E-05 2 GOMF name binding 1.05E-06 1.1445 677 247 314 9.77E-05 2 GOBP name negative regulation of macromolecule metabolic process 7.48E-07 1.673 105 56 314 0.00010206 2 GOBP name posttranscriptional regulation of gene expression 7.84E-07 1.9471 58 36 314 0.00010385 2 GOBP name regulation of cell cycle arrest 8.78E-07 2.3797 29 22 314 0.00011308 2 GOCC name intracellular part 9.26E-06 1.0572 902 304 314 0.00020362 2 GOCC name nucleoplasm part 9.79E-06 2.0638 38 25 314 0.00020837 2 GOBP name protein polyubiquitination 1.72E-06 2.4834 24 19 314 0.00021026 2 GOBP name signal transduction by p53 class mediator 1.99E-06 2.413 26 20 314 0.00023042 2 GOBP name S phase 1.99E-06 2.413 26 20 314 0.00023633 2 GOBP name negative regulation of cellular metabolic process 2.43E-06 1.6446 103 54 314 0.00027546 2 GOCC name ribonucleoprotein complex 1.49E-05 1.4982 134 64 314 0.00030707 2 GOBP name signal transduction involved in mitotic cell cycle G1/S transition DNA damage checkpoint 4.43E-06 2.455 23 18 314 0.00033157 2 GOBP name signal transduction involved in mitotic cell cycle G1/S checkpoint 4.43E-06 2.455 23 18 314 0.00033701 2 GOBP name signal transduction involved in mitotic cell cycle checkpoint 4.43E-06 2.455 23 18 314 0.00034263 2 GOBP name signal transduction involved in G1/S transition checkpoint 4.43E-06 2.455 23 18 314 0.00034843 2 GOBP name signal transduction involved in DNA integrity checkpoint 4.43E-06 2.455 23 18 314 0.00035444 2 GOBP name signal transduction involved in DNA damage checkpoint 4.43E-06 2.455 23 18 314 0.00036066 2 GOBP name signal transduction involved in cell cycle checkpoint 4.43E-06 2.455 23 18 314 0.0003671 2 GOBP name regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle 4.43E-06 2.455 23 18 314 0.00037377 2 GOBP name gene expression 5.11E-06 2.151 35 24 314 0.00037626 2 GOBP name regulation of nucleobase-containing compound metabolic process 5.21E-06 1.4948 149 71 314 0.00037752 2 GOBP name regulation of ubiquitin-protein ligase activity 4.43E-06 2.455 23 18 314 0.0003807 2 GOBP name protein modification by small protein conjugation or removal 5.34E-06 2.1864 33 23 314 0.0003808 2 GOBP name regulation of ligase activity 4.43E-06 2.455 23 18 314 0.00038788 2 GOBP name positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle 4.43E-06 2.455 23 18 314 0.00039534 2 GOMF name "translation factor activity, nucleic acid binding" 5.31E-06 2.3237 27 20 314 0.00040154 2 GOBP name positive regulation of ubiquitin-protein ligase activity 4.43E-06 2.455 23 18 314 0.00040309 2 Keywords Helicase 2.50E-05 2.4765 19 15 314 0.0004031 2 GOBP name positive regulation of ligase activity 4.43E-06 2.455 23 18 314 0.00041115 2 GOBP name negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle 4.43E-06 2.455 23 18 314 0.00041954 2 GOBP name negative regulation of ubiquitin-protein ligase activity 4.43E-06 2.455 23 18 314 0.00042828 2 GOBP name negative regulation of ligase activity 4.43E-06 2.455 23 18 314 0.0004374 2 GOBP name negative regulation of metabolic process 4.20E-06 1.5965 112 57 314 0.00044236 2 GOBP name "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" 4.43E-06 2.455 23 18 314 0.0004469 2 GOBP name anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process 4.43E-06 2.455 23 18 314 0.00045684 2 GOBP name metabolic process 7.43E-06 1.1544 606 223 314 0.00052213 2 Keywords Transcription 3.55E-05 1.7925 56 32 314 0.00053442 2 GOBP name cell cycle process 9.04E-06 1.6566 89 47 314 0.00062604 2 GOCC name eukaryotic translation initiation factor 3 complex 3.14E-05 3.1369 9 9 314 0.00062826 2 GOBP name M phase 1.07E-05 2.0913 36 24 314 0.00072654 2 GOBP name "transcription, DNA-dependent" 1.16E-05 1.9356 47 29 314 0.00078142 2 GOBP name protein ubiquitination 1.29E-05 2.2407 28 20 314 0.00079737 2 GOBP name positive regulation of protein ubiquitination 1.23E-05 2.3527 24 18 314 0.00080181 2 GOBP name G1/S transition of mitotic cell cycle 1.28E-05 2.2924 26 19 314 0.0008022 2 GOBP name protein modification by small protein conjugation 1.26E-05 2.1959 30 21 314 0.00080342 2 GOBP name "DNA damage response, signal transduction by p53 class mediator" 1.23E-05 2.3527 24 18 314 0.00081327 2 GOBP name positive regulation of cell cycle process 1.26E-05 2.1959 30 21 314 0.00081458 2 GOBP name "regulation of transcription, DNA-dependent" 1.42E-05 1.5546 113 56 314 0.00086921 2 GOBP name regulation of translation 1.50E-05 1.9697 43 27 314 0.00089282 2 GOBP name positive regulation of macromolecule metabolic process 1.49E-05 1.5685 108 54 314 0.00089745 2 GOBP name regulation of cellular protein metabolic process 2.00E-05 1.4871 135 64 314 0.001174 2 GOMF name RNA-dependent ATPase activity 2.53E-05 2.8755 12 11 314 0.0011766 2 GOMF name purine NTP-dependent helicase activity 2.50E-05 2.4765 19 15 314 0.0012103 2 GOMF name "ligase activity, forming carbon-oxygen bonds" 2.50E-05 2.4765 19 15 314 0.0012607 2 KEGG name Proteasome 1.12E-05 2.424 22 17 314 0.0012707 2 GOMF name "ligase activity, forming aminoacyl-tRNA and related compounds" 2.50E-05 2.4765 19 15 314 0.0013155 2 GOBP name M phase of mitotic cell cycle 2.32E-05 2.0614 35 23 314 0.0013441 2 GOMF name helicase activity 2.50E-05 2.4765 19 15 314 0.0013753 2 GOBP name tRNA aminoacylation for protein translation 2.50E-05 2.4765 19 15 314 0.0013988 2 GOBP name tRNA aminoacylation 2.50E-05 2.4765 19 15 314 0.0014158 2 GOBP name amino acid activation 2.50E-05 2.4765 19 15 314 0.0014333 2 GOMF name ATP-dependent helicase activity 2.50E-05 2.4765 19 15 314 0.0014408 2 GOMF name ligase activity 2.32E-05 2.0614 35 23 314 0.0014749 2 Keywords Ligase 0.00011661 2.0238 31 20 314 0.0015026 2 GOMF name aminoacyl-tRNA ligase activity 2.50E-05 2.4765 19 15 314 0.0015128 2 GOCC name microtubule organizing center 8.16E-05 1.95 37 23 314 0.0015386 2 Keywords Transcriptionregulation 0.00012334 1.7427 54 30 314 0.0015452 2 GOMF name RNA helicase activity 4.12E-05 2.6888 14 12 314 0.0017785 2 Keywords Aminoacyl-tRNAsynthetase 0.0001593 2.3988 17 13 314 0.0019417 2 GOCC name RNA granule 0.00014189 2.5096 15 12 314 0.0026013 2 GOBP name positive regulation of RNA metabolic process 4.92E-05 1.8098 52 30 314 0.0026228 2 GOMF name ATP-dependent RNA helicase activity 7.43E-05 2.8518 11 10 314 0.0030981 2 GOBP name regulation of cell cycle process 6.24E-05 1.9128 41 25 314 0.0032168 2 GOCC name nucleolus 0.0002044 1.6133 70 36 314 0.0032903 2 GOBP name positive regulation of cellular metabolic process 6.63E-05 1.4887 118 56 314 0.0033809 2 GOBP name signal transduction in response to DNA damage 6.82E-05 2.1717 26 18 314 0.0034007 2 GOBP name regulation of protein metabolic process 7.08E-05 1.4278 145 66 314 0.0034223 2 GOBP name negative regulation of protein ubiquitination 6.82E-05 2.1717 26 18 314 0.0034377 2 GOBP name regulation of cellular amino acid metabolic process 7.07E-05 2.222 24 17 314 0.0034502 2 GOBP name regulation of cellular amine metabolic process 7.07E-05 2.222 24 17 314 0.0034869 2 GOBP name nucleobase metabolic process 7.43E-05 2.8518 11 10 314 0.0035541 2 GOCC name centrosome 0.00024355 1.9867 30 19 314 0.0037382 2 GOBP name positive regulation of metabolic process 8.07E-05 1.4673 124 58 314 0.0038187 2 GOBP name ubiquitin-dependent protein catabolic process 8.16E-05 1.95 37 23 314 0.0038232 2 GOCC name chromosomal part 0.00028149 1.8652 37 22 314 0.0041285 2 GOCC name chaperonin-containing T-complex 0.00031951 3.1369 7 7 314 0.0044867 2 GOBP name regulation of cell cycle 0.00010403 1.7365 56 31 314 0.0046854 2 GOBP name negative regulation of cellular protein metabolic process 0.00012334 1.7427 54 30 314 0.0053981 2 GOBP name regulation of protein ubiquitination 0.0001414 2.0913 27 18 314 0.0061303 2 GOBP name apoptosis 0.0001461 1.7494 52 29 314 0.0062757 2 Keywords Activator 0.00056731 1.9751 27 17 314 0.0065604 2 GOBP name negative regulation of protein metabolic process 0.00015859 1.7061 57 31 314 0.0066882 2 GOBP name tRNA metabolic process 0.00016156 2.1822 23 16 314 0.0067522 2 GOBP name negative regulation of protein modification process 0.00016483 1.917 36 22 314 0.0068274 2 GOBP name positive regulation of nucleobase-containing compound metabolic process 0.00019862 1.673 60 32 314 0.0080123 2 GOBP name "positive regulation of transcription, DNA-dependent" 0.00020436 1.7645 48 27 314 0.0081726 2 GOBP name proteasomal ubiquitin-dependent protein catabolic process 0.00021513 1.9606 32 20 314 0.0084576 2 GOBP name proteasomal protein catabolic process 0.00021513 1.9606 32 20 314 0.0085299 2 GOBP name antigen processing and presentation 0.00022409 1.7164 53 29 314 0.0087357 2 KEGG name Aminoacyl-tRNA biosynthesis 0.0001593 2.3988 17 13 314 0.0090002 2 GOBP name proteolysis involved in cellular protein catabolic process 0.00024187 1.85 39 23 314 0.0091971 2 GOBP name modification-dependent protein catabolic process 0.00024187 1.85 39 23 314 0.0092731 2 GOBP name modification-dependent macromolecule catabolic process 0.00024187 1.85 39 23 314 0.0093504 2 GOBP name cellular response to stress 0.00025738 1.532 86 42 314 0.0096291 2 GOBP name positive regulation of cellular protein metabolic process 0.00026609 1.7222 51 28 314 0.0097969 2 GOBP name antigen processing and presentation of exogenous antigen 0.00026609 1.7222 51 28 314 0.0098753 2 GOBP name ribonucleoside monophosphate biosynthetic process 0.00031951 3.1369 7 7 314 0.011402 2 GOBP name nucleoside monophosphate biosynthetic process 0.00031951 3.1369 7 7 314 0.01149 2 GOBP name programmed cell death 0.00033602 1.6847 54 29 314 0.011547 2 GOBP name positive regulation of protein metabolic process 0.00033602 1.6847 54 29 314 0.011633 2 GOBP name regulation of translational initiation 0.00039086 2.3527 16 12 314 0.013332 2 GOBP name positive regulation of macromolecule biosynthetic process 0.00041703 1.6191 62 32 314 0.014121 2 Keywords Chromosome 0.0013188 1.9606 24 15 314 0.014507 2 Keywords Methylation 0.0014116 1.5022 71 34 314 0.015158 2 GOBP name antigen processing and presentation of peptide antigen via MHC class I 0.00046261 1.8161 38 22 314 0.015329 2 Keywords Microtubule 0.0016951 2.039 20 13 314 0.017778 2 GOBP name positive regulation of biosynthetic process 0.00057333 1.5685 68 34 314 0.018599 2 GOMF name mRNA binding 0.00049818 1.9471 29 18 314 0.018822 2 GOBP name positive regulation of nitrogen compound metabolic process 0.00058857 1.5934 63 32 314 0.018961 2 GOBP name positive regulation of protein modification process 0.00062116 1.7597 41 23 314 0.019339 2 GOBP name RNA stabilization 0.00061995 2.7884 9 8 314 0.019432 2 GOBP name mRNA stabilization 0.00061995 2.7884 9 8 314 0.019564 2 KEGG name mRNA surveillance pathway 0.00061995 2.7884 9 8 314 0.020015 2 GOBP name negative regulation of nucleobase-containing compound metabolic process 0.00070093 1.6607 51 27 314 0.021534 2 GOBP name antigen processing and presentation of peptide antigen 0.00070093 1.6607 51 27 314 0.021677 2 GOCC name stress granule 0.0021279 2.5096 10 8 314 0.023407 2 GOCC name microtubule associated complex 0.0021279 2.5096 10 8 314 0.023804 2 GOBP name nucleoside metabolic process 0.00081624 2.5666 11 9 314 0.024749 2 GOBP name antigen processing and presentation of exogenous peptide antigen 0.00083528 1.6645 49 26 314 0.024839 2 GOBP name negative regulation of cellular macromolecule biosynthetic process 0.00084655 1.6266 54 28 314 0.025014 2 GOBP name 'de novo' posttranslational protein folding 0.00091474 2.2143 17 12 314 0.026857 2 GOBP name positive regulation of cellular biosynthetic process 0.00093651 1.5451 67 33 314 0.027324 2 GOBP name purine ribonucleoside monophosphate biosynthetic process 0.0010156 3.1369 6 6 314 0.028211 2 GOBP name purine nucleoside monophosphate biosynthetic process 0.0010156 3.1369 6 6 314 0.028381 2 KEGG name Ribosome biogenesis in eukaryotes 0.0010156 3.1369 6 6 314 0.02869 2 GOBP name positive regulation of gene expression 0.0010099 1.6288 52 27 314 0.028921 2 Keywords Virion 0.003221 3.1369 5 5 314 0.029646 2 Keywords Viralnucleoprotein 0.003221 3.1369 5 5 314 0.030264 2 Keywords Purinebiosynthesis 0.003221 3.1369 5 5 314 0.030908 2 Keywords Nonsense-mediatedmRNAdecay 0.003221 3.1369 5 5 314 0.031579 2 GOBP name regulation of transcription from RNA polymerase II promoter 0.0012047 1.6312 50 26 314 0.032875 2 GOCC name U12-type spliceosomal complex 0.003221 3.1369 5 5 314 0.033743 2 GOBP name negative regulation of cellular biosynthetic process 0.0013874 1.5685 58 29 314 0.037421 2 GOBP name "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" 0.0014149 1.8215 31 18 314 0.037506 2 KEGG name Spliceosome 0.0016606 1.8389 29 17 314 0.03753 2 GOBP name negative regulation of nitrogen compound metabolic process 0.0014254 1.5981 53 27 314 0.037572 2 GOBP name antigen processing and presentation of exogenous peptide antigen via MHC class I 0.0014149 1.8215 31 18 314 0.037722 2 Keywords Repressor 0.0043652 1.8299 24 14 314 0.03786 2 Keywords Cellcycle 0.0043652 1.8299 24 14 314 0.038602