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Table 2 Categories of functionally enriched gene ontology (GO) biological processes (BPs) in the pink module. The latter is the cancer-associated module, and hub genes from this module are shown in the table

From: Integrated network analysis and logistic regression modeling identify stage-specific genes in Oral Squamous Cell Carcinoma

Representative GO term BP ID Frequency (%) Hypergeometric p-value Genes in GO category
polyphosphate metabolic process GO:0006797 0.001 5.789 × 10−03 MINPP1
cellular response to vitamin D GO:0071305 0.040 2.153 × 10−05 AHR, APP, ATP2C1, CXCL5, CYP27B1, DFNA5, DKK1, DUSP6, EGFR, FGD6, GLS, GNB5, HMGA2, HOXA1, IL8, IRS1, ITGB1, MET, MTMR2, MYO5A, PANX1, PSPH, PTHLH, PTPRK, RAB8B, SLC12A2, SLC20A1, SNAI2, STC1, STK3, TNFRSF10B
mitotic G2 phase GO:0000085 0.013 1.156 × 10−03 APP, E2F3
regulation of single stranded viral RNA replication via double stranded DNA intermediate GO:0045091 0.009 4.873 × 10−04 AHR, APP, ATP2C1, CYP27B1, DFNA5, DKK1, DUSP6, E2F3, EGFR, FGD6, HMGA2, HOXA1, IL8, IRS1, ITGB1, LPCAT1, MET, MTMR2, PANX1, PLAG1, PTHLH, RAB8B, RSF1, SDC4, SLC20A1, SNAI2, STC1, STK3, TNFRSF10B
negative regulation of keratinocyte proliferation GO:0010839 0.015 4.873 × 10−04 APP, CXCL5, E2F3, EGFR, HMGA2, IRS1, ITGB1, MMP12, PLAG1, PTHLH, PTPRK, SNAI2
gland morphogenesis GO:0022612 0.399 2.716 × 10−05 AHR, APP, ATP2C1, CHSY1, COL4A5, CYP27B1, DFNA5, DKK1, DUSP6, EGFR, FGD6, GNA12, HMGA2, HOXA1, IL8, IRS1, ITGB1, LAMA3, LAMC2, LPCAT1, MET, MINPP1, MMP10, MMP12, MTMR2, MYO5A, PLAG1, PTHLH, SEMA3C, SLC12A2, SNAI2, SNX10, STC1