Supplemental Table S3. KEGG enrichments. KEGG-based pathway enrichment analysis of the regulated phosphorylation sites. Cluster ID Description GeneRatio BgRatio pvalue p.adjust qvalue geneID Count cluster2 hsa03430 Mismatch repair 3/31 33/10128 0.000133133 0.008653647 0.007287282 P18858/Q15054/P52701 3 cluster2 hsa03410 Base excision repair 3/31 54/10128 0.000579488 0.017955855 0.01512072 P18858/Q15054/P49916 3 cluster2 hsa03420 Nucleotide excision repair 3/31 61/10128 0.000828732 0.017955855 0.01512072 P18858/Q15054/Q01831 3 cluster3 hsa05206 MicroRNAs in cancer 6/32 239/10128 8.78E-05 0.010450917 0.009152064 P24821/P04049/P09619/Q04721/Q9Y4H2/P16070 6 cluster5 hsa04510 Focal adhesion 5/22 311/10128 0.000452653 0.029637502 0.022452653 Q13177/Q15746/Q9NVD7/P05412/P27361 5 cluster5 hsa04810 Regulation of actin cytoskeleton 5/22 315/10128 0.000479988 0.029637502 0.022452653 P19634/P98174/Q13177/Q15746/P27361 5 cluster5 hsa04722 Neurotrophin signaling pathway 4/22 190/10128 0.00067358 0.029637502 0.022452653 P35568/P52565/P05412/P27361 4 cluster5 hsa04910 Insulin signaling pathway 4/22 206/10128 0.000911995 0.030095836 0.022799876 P18031/P35568/Q15642/P27361 4 cluster6 hsa04910 Insulin signaling pathway 8/32 206/10128 1.77E-07 2.42E-05 1.04E-05 P49815/O14920/P04049/P10398/P31749/P35568/P62753/P29353 8 cluster6 hsa05220 Chronic myeloid leukemia 6/32 121/10128 1.80E-06 0.000123629 5.32E-05 Q01196/O14920/P04049/P10398/P31749/P29353 6 cluster6 hsa05206 MicroRNAs in cancer 7/32 239/10128 7.59E-06 0.000346642 0.000149151 P08670/O14920/P04049/P29966/P35568/P29353/P05106 7 cluster6 hsa05221 Acute myeloid leukemia 5/32 96/10128 1.13E-05 0.000388021 0.000166955 Q01196/O14920/P04049/P10398/P31749 5 cluster6 hsa05160 Hepatitis C 6/32 190/10128 2.43E-05 0.000585819 0.000252062 O14920/P04049/P10398/P31749/P42224/Q7Z434 6 cluster6 hsa01521 EGFR tyrosine kinase inhibitor resistance 5/32 117/10128 2.96E-05 0.000585819 0.000252062 P04049/P10398/P31749/P62753/P29353 5 cluster6 hsa04150 mTOR signaling pathway 6/32 205/10128 3.73E-05 0.000585819 0.000252062 P49815/O14920/P04049/P31749/P35568/P62753 6 cluster6 hsa05212 Pancreatic cancer 5/32 123/10128 3.77E-05 0.000585819 0.000252062 O14920/P04049/P10398/P31749/P42224 5 cluster6 hsa05205 Proteoglycans in cancer 7/32 307/10128 3.85E-05 0.000585819 0.000252062 O14974/P04049/P10398/P31749/P62753/Q9NZN5/P05106 7 cluster6 hsa04625 C-type lectin receptor signaling pathway 5/32 150/10128 9.72E-05 0.001331785 0.000573031 O14920/P04049/P31749/P42224/Q9NZN5 5 cluster6 hsa04062 Chemokine signaling pathway 6/32 273/10128 0.000182303 0.002230262 0.000959621 O14920/P04049/P31749/P42224/Q9UBI6/P29353 6 cluster6 hsa04919 Thyroid hormone signaling pathway 5/32 174/10128 0.000195351 0.002230262 0.000959621 P49815/P04049/P31749/P42224/P05106 5 cluster6 hsa04722 Neurotrophin signaling pathway 5/32 190/10128 0.000294081 0.002970632 0.001278182 O14920/P04049/P31749/P35568/P29353 5 cluster6 hsa04068 FoxO signaling pathway 5/32 197/10128 0.000347592 0.002970632 0.001278182 O14920/P04049/P10398/P31749/P35568 5 cluster6 hsa05214 Glioma 4/32 108/10128 0.000349385 0.002970632 0.001278182 P04049/P10398/P31749/P29353 4 cluster6 hsa04210 Apoptosis 5/32 198/10128 0.000355801 0.002970632 0.001278182 O14920/P02545/P04049/P20700/P31749 5 cluster6 hsa04510 Focal adhesion 6/32 311/10128 0.000368619 0.002970632 0.001278182 O14974/P04049/P31749/Q9NVD7/P29353/P05106 6 cluster6 hsa04810 Regulation of actin cytoskeleton 6/32 315/10128 0.000394708 0.002993494 0.001288019 O14974/P04049/P10398/Q9UBI6/Q9NZN5/P05106 6 cluster6 hsa04917 Prolactin signaling pathway 4/32 113/10128 0.000415156 0.002993494 0.001288019 P04049/P31749/P42224/P29353 4 cluster6 hsa05161 Hepatitis B 5/32 209/10128 0.000456163 0.003124716 0.00134448 O14920/P04049/P31749/P42224/Q7Z434 5 cluster6 hsa04014 Ras signaling pathway 6/32 335/10128 0.000547729 0.003573278 0.001537484 O14920/P04049/P31749/Q13671/Q9UBI6/P29353 6 cluster6 hsa04012 ErbB signaling pathway 4/32 135/10128 0.000812712 0.005060976 0.0021776 P04049/P10398/P31749/P29353 4 cluster6 hsa05215 Prostate cancer 4/32 148/10128 0.001145229 0.006821581 0.002935141 O14920/P04049/P10398/P31749 4 cluster6 hsa01522 Endocrine resistance 4/32 154/10128 0.001326986 0.007574877 0.003259263 P04049/P10398/P31749/P29353 4 cluster6 hsa05164 Influenza A 5/32 280/10128 0.001700779 0.009247429 0.003978917 O14920/P04049/P31749/P42224/Q7Z434 5 cluster6 hsa05167 Kaposi's sarcoma-associated herpesvirus infection 5/32 282/10128 0.001754987 0.009247429 0.003978917 O14920/P04049/P31749/P42224/Q9UBI6 5 cluster6 hsa04270 Vascular smooth muscle contraction 4/32 172/10128 0.001992608 0.010110638 0.004350332 O14974/P04049/P10398/Q9NZN5 4 cluster6 hsa04380 Osteoclast differentiation 4/32 176/10128 0.002167057 0.010603101 0.004562226 O14920/P31749/P42224/P05106 4 cluster6 hsa04611 Platelet activation 4/32 178/10128 0.002258134 0.010667738 0.004590037 O14974/P31749/Q9NZN5/P05106 4 cluster6 hsa05165 Human papillomavirus infection 6/32 457/10128 0.002720613 0.012424135 0.005345767 P49815/O14920/P04049/P31749/P42224/P05106 6 cluster6 hsa04140 Autophagy - animal 4/32 194/10128 0.003084285 0.013630551 0.005864855 P49815/P04049/P31749/P35568 4 cluster6 hsa04926 Relaxin signaling pathway 4/32 198/10128 0.003319309 0.013916689 0.005987972 P04049/P31749/Q9UBI6/P29353 4 cluster6 hsa05224 Breast cancer 4/32 200/10128 0.003441301 0.013916689 0.005987972 P04049/P10398/P31749/P29353 4 cluster6 hsa05213 Endometrial cancer 3/32 97/10128 0.003453777 0.013916689 0.005987972 P04049/P10398/P31749 3 cluster6 hsa04662 B cell receptor signaling pathway 3/32 106/10128 0.004433111 0.01617465 0.006959511 O14920/P04049/P31749 3 cluster6 hsa05218 Melanoma 3/32 106/10128 0.004433111 0.01617465 0.006959511 P04049/P10398/P31749 3 cluster6 hsa05223 Non-small cell lung cancer 3/32 106/10128 0.004433111 0.01617465 0.006959511 P04049/P10398/P31749 3 cluster6 hsa05226 Gastric cancer 4/32 216/10128 0.004529572 0.01617465 0.006959511 P04049/P10398/P31749/P29353 4 cluster6 hsa05034 Alcoholism 4/32 217/10128 0.004604462 0.01617465 0.006959511 P04049/P10398/Q9UBI6/P29353 4 cluster6 hsa04371 Apelin signaling pathway 4/32 220/10128 0.004834164 0.016557013 0.007124032 P04049/P31749/P62753/Q9UBI6 4 cluster6 hsa04072 Phospholipase D signaling pathway 4/32 222/10128 0.004991534 0.016679027 0.007176531 P49815/P04049/P31749/P29353 4 cluster6 hsa04920 Adipocytokine signaling pathway 3/32 112/10128 0.005170731 0.016866432 0.007257166 O14920/P31749/P35568 3 cluster6 hsa05211 Renal cell carcinoma 3/32 117/10128 0.005838847 0.018602837 0.008004294 P04049/P10398/P31749 3 cluster6 hsa04621 NOD-like receptor signaling pathway 4/32 234/10128 0.006008932 0.01870963 0.008050244 O14920/P42224/Q7Z434/Q9H6X2 4 cluster6 hsa04022 cGMP-PKG signaling pathway 4/32 244/10128 0.006956274 0.021177988 0.009112312 O14974/P04049/P31749/P35568 4 cluster6 hsa05225 Hepatocellular carcinoma 4/32 247/10128 0.007258776 0.02161853 0.009301864 P04049/P10398/P31749/P29353 4 cluster6 hsa04211 Longevity regulating pathway 3/32 134/10128 0.008487457 0.024740033 0.010644962 P49815/P31749/P35568 3 cluster6 hsa04914 Progesterone-mediated oocyte maturation 3/32 136/10128 0.008838418 0.024891731 0.010710234 P04049/P10398/P31749 3 cluster6 hsa04145 Phagosome 4/32 262/10128 0.008902882 0.024891731 0.010710234 O15400/Q14204/Q9Y6G9/P05106 4 cluster6 hsa04666 Fc gamma R-mediated phagocytosis 3/32 138/10128 0.009197838 0.025202077 0.010843767 P04049/P29966/P31749 3 cluster6 hsa05210 Colorectal cancer 3/32 142/10128 0.009942232 0.026707566 0.011491538 P04049/P10398/P31749 3 cluster6 hsa04620 Toll-like receptor signaling pathway 3/32 145/10128 0.01052305 0.027201092 0.011703889 O14920/P31749/P42224 3 cluster6 hsa05231 Choline metabolism in cancer 3/32 145/10128 0.01052305 0.027201092 0.011703889 P49815/P04049/P31749 3 cluster6 hsa04010 MAPK signaling pathway 5/32 435/10128 0.011026323 0.027974189 0.012036532 O14920/P04049/P10398/P31749/Q9UBI6 5 cluster6 hsa04931 Insulin resistance 3/32 153/10128 0.012167321 0.03029337 0.013034412 O14920/P31749/P35568 3 cluster6 hsa04660 T cell receptor signaling pathway 3/32 154/10128 0.012382692 0.03029337 0.013034412 O14920/P04049/P31749 3 cluster6 hsa05152 Tuberculosis 4/32 296/10128 0.013493356 0.032431401 0.013954348 P04049/P31749/P42224/Q9NZN5 4 cluster6 hsa05168 Herpes simplex infection 4/32 300/10128 0.014116675 0.033344559 0.014347255 O14920/P42224/P51610/Q7Z434 4 cluster6 hsa04726 Serotonergic synapse 3/32 168/10128 0.015630392 0.036294299 0.015616448 P04049/P10398/Q9UBI6 3 cluster6 hsa04152 AMPK signaling pathway 3/32 178/10128 0.018218827 0.041599655 0.017899198 P49815/P31749/P35568 3 cluster6 hsa04962 Vasopressin-regulated water reabsorption 2/32 69/10128 0.019890406 0.044671896 0.0192211 Q14204/Q9Y6G9 2 cluster6 hsa05162 Measles 3/32 190/10128 0.021623818 0.047781663 0.020559148 P31749/P42224/Q7Z434 3 cluster6 hsa04650 Natural killer cell mediated cytotoxicity 3/32 193/10128 0.022526256 0.04854459 0.020887415 P04049/P10398/P29353 3 cluster6 hsa05219 Bladder cancer 2/32 74/10128 0.022677765 0.04854459 0.020887415 P04049/P10398 2 cluster6 hsa04623 Cytosolic DNA-sensing pathway 2/32 76/10128 0.023835576 0.049940591 0.021488076 O14920/Q7Z434 2 cluster6 hsa04659 Th17 cell differentiation 3/32 199/10128 0.024392693 0.049940591 0.021488076 Q01196/O14920/P42224 3 cluster6 hsa04930 Type II diabetes mellitus 2/32 77/10128 0.024423501 0.049940591 0.021488076 O14920/P35568 2 cluster7 hsa04066 HIF-1 signaling pathway 6/41 163/10128 4.47E-05 0.005210845 0.003383665 P40763/P08559/P36507/Q13557/P28482/P00533 6 cluster7 hsa05214 Glioma 5/41 108/10128 6.94E-05 0.005210845 0.003383665 P36507/Q13557/P28482/P29353/P00533 5 cluster7 hsa01521 EGFR tyrosine kinase inhibitor resistance 5/41 117/10128 0.00010151 0.005210845 0.003383665 P40763/P36507/P28482/P29353/P00533 5 cluster7 hsa04012 ErbB signaling pathway 5/41 135/10128 0.000199128 0.005804147 0.003768927 P36507/Q13557/P28482/P29353/P00533 5 cluster7 hsa04510 Focal adhesion 7/41 311/10128 0.000220287 0.005804147 0.003768927 P13612/Q15746/Q9NRY4/O14974/P28482/P29353/P00533 7 cluster7 hsa04810 Regulation of actin cytoskeleton 7/41 315/10128 0.000238258 0.005804147 0.003768927 P13612/P36507/Q15746/Q9NRY4/O14974/P28482/P00533 7 cluster7 hsa04921 Oxytocin signaling pathway 6/41 225/10128 0.000263825 0.005804147 0.003768927 P36507/Q15746/Q13557/O14974/P28482/P00533 6 cluster7 hsa05206 MicroRNAs in cancer 6/41 239/10128 0.000364929 0.007024877 0.004561608 P40763/P08670/P36507/P28482/P29353/P00533 6 cluster7 hsa04270 Vascular smooth muscle contraction 5/41 172/10128 0.000608859 0.010418246 0.006765095 P36507/Q15746/O14974/O15085/P28482 5 cluster7 hsa05223 Non-small cell lung cancer 4/41 106/10128 0.000852296 0.012359462 0.008025625 P40763/P36507/P28482/P00533 4 cluster7 hsa05230 Central carbon metabolism in cancer 4/41 107/10128 0.000882819 0.012359462 0.008025625 P08559/P36507/P28482/P00533 4 cluster7 hsa04917 Prolactin signaling pathway 4/41 113/10128 0.001082378 0.013300201 0.008636494 P40763/P36507/P28482/P29353 4 cluster7 hsa04068 FoxO signaling pathway 5/41 197/10128 0.001122744 0.013300201 0.008636494 P40763/P36507/Q9NSC5/P28482/P00533 5 cluster7 hsa05205 Proteoglycans in cancer 6/41 307/10128 0.001357393 0.014064054 0.009132502 P40763/P36507/Q13557/O14974/P28482/P00533 6 cluster7 hsa04910 Insulin signaling pathway 5/41 206/10128 0.001369875 0.014064054 0.009132502 P49815/P36507/P49327/P28482/P29353 5 cluster7 hsa04072 Phospholipase D signaling pathway 5/41 222/10128 0.001905742 0.018342769 0.011910889 P49815/P36507/P28482/P29353/P00533 5 cluster7 hsa05231 Choline metabolism in cancer 4/41 145/10128 0.002705637 0.024509885 0.01591551 P49815/P36507/P28482/P00533 4 cluster7 hsa04912 GnRH signaling pathway 4/41 149/10128 0.002985255 0.024569839 0.015954441 P36507/Q13557/P28482/P00533 4 cluster7 hsa05225 Hepatocellular carcinoma 5/41 247/10128 0.003031344 0.024569839 0.015954441 P15559/P36507/P28482/P29353/P00533 5 cluster7 hsa05219 Bladder cancer 3/41 74/10128 0.003270622 0.024653848 0.016008992 P36507/P28482/P00533 3 cluster7 hsa01522 Endocrine resistance 4/41 154/10128 0.003361888 0.024653848 0.016008992 P36507/P28482/P29353/P00533 4 cluster7 hsa04611 Platelet activation 4/41 178/10128 0.005626266 0.039137275 0.025413815 Q15746/Q9NRY4/O14974/P28482 4 cluster7 hsa04370 VEGF signaling pathway 3/41 91/10128 0.005845177 0.039137275 0.025413815 P04792/P36507/P28482 3 cluster7 hsa05221 Acute myeloid leukemia 3/41 96/10128 0.006779385 0.041871455 0.027189256 P40763/P36507/P28482 3 cluster7 hsa05213 Endometrial cancer 3/41 97/10128 0.006976272 0.041871455 0.027189256 P36507/P28482/P00533 3 cluster7 hsa04722 Neurotrophin signaling pathway 4/41 190/10128 0.007069207 0.041871455 0.027189256 P36507/Q13557/P28482/P29353 4 cluster7 hsa04140 Autophagy - animal 4/41 194/10128 0.007599969 0.043347974 0.028148035 P49815/P36507/Q9HB90/P28482 4 cluster7 hsa04926 Relaxin signaling pathway 4/41 198/10128 0.008156503 0.043771699 0.028423181 P36507/P28482/P29353/P00533 4 cluster7 hsa05224 Breast cancer 4/41 200/10128 0.008444593 0.043771699 0.028423181 P36507/P28482/P29353/P00533 4 cluster7 hsa05218 Melanoma 3/41 106/10128 0.00890216 0.043771699 0.028423181 P36507/P28482/P00533 3 cluster7 hsa04720 Long-term potentiation 3/41 107/10128 0.009133487 0.043771699 0.028423181 P36507/Q13557/P28482 3 cluster7 hsa04150 mTOR signaling pathway 4/41 205/10128 0.009193967 0.043771699 0.028423181 P49815/P36507/Q9HB90/P28482 4 cluster7 hsa05165 Human papillomavirus infection 6/41 457/10128 0.009594568 0.043771699 0.028423181 P49815/Q14738/P13612/P36507/P28482/P00533 6 cluster7 hsa04915 Estrogen signaling pathway 4/41 208/10128 0.009663882 0.043771699 0.028423181 P36507/P28482/P29353/P00533 4 cluster7 hsa05226 Gastric cancer 4/41 216/10128 0.010993105 0.048369661 0.031408871 P36507/P28482/P29353/P00533 4 cluster8 hsa03013 RNA transport 6/40 215/10128 0.000179218 0.022760658 0.01924233 P12270/P35658/P49790/P55884/Q09161/Q9UKV3 6 cluster8 hsa05205 Proteoglycans in cancer 6/40 307/10128 0.00118852 0.044412791 0.03754749 P04049/P19634/P62753/Q14315/Q9NZN5/P27361 6 cluster8 hsa03015 mRNA surveillance pathway 4/40 120/10128 0.001232193 0.044412791 0.03754749 Q16537/Q09161/Q9UKV3/Q9Y450 4 cluster8 hsa04010 MAPK signaling pathway 7/40 435/10128 0.001398828 0.044412791 0.03754749 P04049/P04792/P16949/P17535/P29317/Q14315/P27361 7