Table 2. Major cell cycle bioprocesses in clusters 6, 11, 13 and 14 associated with MIOs, IEs and PAHs.
GO ID | p-value | corr p-value | k* | n# | Description | Genes in test set |
---|---|---|---|---|---|---|
22402 | 1,64E-22 | 9,74E-21 | 77 | 582 | cell cycle process | APP|CDKN1A|CETN2|CLTC|UBE2D1|PSMD8|PSMD9|PPP3CA|PSMD7|PSMD4|PSMD2|PSMD3|PSMD1|AKT1|IL12B|NBN|POLE|APC2|H2AFX|CDC25A|DNM2|PSMA5|PSMA6|DNAJC2|PSMA3|ADAM17|PSMA4|PSMA1|PSME3|PSME1|PSME2|TP53|PSMD10|PSMD12|PSMD11|RGS14|PSMD13|CUL2|THBS1|EGFR|PSMB10|PSMB6|PSMB7|PSMB4|C6|PSMB5|PSMB2|PSMB3|POLD1|PSMB1|CLTCL1|APBB1|UBE2I|TGFB1|SMAD3|VDR|RPA1|MRE11A|CDC6|HSPA2|PSMB8|MAPK12|PSMB9|PPP5C|RAD50|PSMC6|PSMC3|APC|IL8|PSMC4|PSMC1|PSMC2|CDK2|MDM2|CTNNB1|CALR|SUGT1 |
278 | 9,54E-21 | 5,08E-19 | 60 | 380 | mitotic cell cycle | APP|CDKN1A|CETN2|CLTC|UBE2D1|PSMD8|PSMD9|PPP3CA|PSMD7|PSMD4|PSMD2|PSMD3|PSMD1|AKT1|POLE|APC2|CDC25A|DNM2|PSMA5|PSMA6|DNAJC2|PSMA3|ADAM17|PSMA4|PSMA1|PSME3|PSME1|PSME2|PSMD10|PSMD12|PSMD11|RGS14|PSMD13|CUL2|EGFR|PSMB10|PSMB6|PSMB7|PSMB4|C6|PSMB5|PSMB2|PSMB3|POLD1|PSMB1|CLTCL1|UBE2I|CDC6|PSMB8|PSMB9|PPP5C|PSMC6|PSMC3|APC|PSMC4|PSMC1|PSMC2|CDK2|MDM2|SUGT1 |
7049 | 3,12E-18 | 1,43E-16 | 84 | 794 | cell cycle | APP|CDKN1A|STEAP3|CCNH|CETN2|CLTC|UBE2D1|PSMD8|PSMD9|PPP3CA|PSMD7|PSMD4|PSMD2|PSMD3|PSMD1|AKT1|IL12B|EP300|NBN|POLE|APC2|ANXA1|H2AFX|CDC25A|DNM2|PSMA5|GAK|PSMA6|DNAJC2|PSMA3|ADAM17|PSMA4|PSMA1|PSME3|PSME1|PSME2|TP53|PSMD10|PSMD12|PSMD11|RGS14|PSMD13|CUL2|THBS1|EGFR|PSMB10|PSMB6|PSMB7|PSMB4|C6|PSMB5|PSMB2|PSMB3|POLD1|PSMB1|CLTCL1|APBB1|UBE2I|TGFB1|SMAD3|VDR|RPA1|MRE11A|CDC6|HSPA2|PSMB8|MAPK12|PSMB9|CYLD|PPP5C|RAD50|PSMC6|PSMC3|APC|IL8|PSMC4|PSMC1|PSMC2|CDK2|MDM2|CTNNB1|REN|CALR|SUGT1 |
22402 | 4,62E-06 | 1,46E-04 | 22 | 582 | cell cycle process | CDKN1A|NPM1|UBE2I|CDKN2A|CETN2|PLK1|H2AFX|NCAPG|SMC1A|MLH1|CENPA|NDC80|SMC2|MSH6|PPP2CA|POLA1|PPP5C|MSH2|FANCD2|CDK1|NBN|TP53 |
75 | 5,61E-06 | 1,73E-04 | 11 | 107 | cell cycle checkpoint | CDKN1A|MSH2|CDKN2A|PLK1|H2AFX|CDK1|NBN|PPP2R5C|SMC1A|TP53|ATR |
6281 | 7,00E-12 | 4,71E-10 | 22 | 298 | DNA repair | POLQ|FEN1|PARP1|PRKDC|PARP2|H2AFX|RAD23A|SMC1A|MLH1|RAD23B|DDB2|MSH6|POLB|POLA1|MSH2|SUMO1|FANCD2|APEX1|UBE2N|NBN|TP53|ATR |
51726 | 1,37E-05 | 1,78E-04 | 19 | 446 | regulation of cell cycle | MAP2K1|JUN|CREBBP|CDKN1A|HDAC2|NGF|TNF|CYLD|KAT2B|IL1A|ADAM17|IFNG|CDC37|CASP3|IL1B|IL12B|AKT1|HRAS|MAP2K6 |
51726 | 5,25E-11 | 1,98E-09 | 48 | 447 | regulation of cell cycle | CDS1|CDKN1A|HDAC2|TRRAP|HDAC1|CITED2|CUL1|ILK|FOXO4|ETS1|EGFR|SOX2|CCND3|CCND1|CDH1|AKT1|IL12B|SFN|PRKACA|BTRC|JUNB|HRAS|MEN1|APC2|TCF7L2|JUN|CREBBP|MAP2K1|TIPIN|SMAD3|CDKN2A|GSS|INSR|PTPN11|CDC25C|CDC25A|SMARCA4|FOSL1|KAT2B|COPS5|APC|PKIA|MDM2|TIMELESS|ATM|TCF4|TCF3|TP53 |
22402 | 9,37E-06 | 1,83E-04 | 46 | 583 | cell cycle process | CAMK2B|CDKN1A|NCAPG2|CUL1|UBE2D1|ILK|FOXO4|EGFR|SOX2|PPP2CA|PPP3CA|CCND1|CDH1|RUVBL1|ABL1|AKT1|IL12B|BTRC|HRAS|MEN1|SKP1|APC2|TCF7L2|MAP2K1|TIPIN|UBE2I|SMAD3|CSNK1A1|CDKN2A|GSS|CDC25C|CDC25A|KAT2B|PPP5C|APC|MDM2|TIMELESS|CTNNB1|NCAPD2|MDM4|ATM|TCF4|NCAPD3|TCF3|TP53|TAF1 |
7049 | 2,41E-05 | 4,31E-04 | 55 | 795 | cell cycle | CDKN1A|STEAP3|NCAPG2|UBE2D1|ILK|CDC73|SOX2|PPP3CA|CCND1|CDH1|RUVBL1|AKT1|IL12B|EP300|BTRC|HRAS|MEN1|SKP1|APC2|MAP2K1|TIPIN|ANXA1|DUSP1|FBXW11|CDC25C|CDC25A|KAT2B|TIMELESS|TP53|CDS1|CAMK2B|CUL1|FOXO4|EGFR|RNF2|PPP2CA|ABL1|TCF7L2|UBE2I|SMAD3|CSNK1A1|CDKN2A|GSS|PPP1CA|PPP5C|APC|MDM2|CTNNB1|NCAPD2|MDM4|ATM|TCF4|NCAPD3|TCF3|TAF1 |
7050 | 2,63E-05 | 4,64E-04 | 18 | 109 | cell cycle arrest | TCF7L2|CDKN1A|MAP2K1|SMAD3|CDKN2A|GSS|CUL1|ILK|FOXO4|SOX2|KAT2B|APC|IL12B|ATM|TCF4|TP53|HRAS|MEN1 |
total number of nodes in the gene ontology (GO) annotation;
number of nodes related to a given GO in the network.