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Table 5 Significant pathways and constituent genes identified by the proposed DIGS model for Pawitan

From: Pathway activity inference for multiclass disease classification through a mathematical programming optimisation framework

Pathway name Significant constituent genes
PROSTATE CANCER EGFR, TCF7L1, GSTP1, PDGFRA, CCNE1, CHUK, PIK3R3, ERBB2, PIK3R1
UBIQUITIN MEDIATED PROTEOLYSIS UBE2E3, MID1, SKP2, BRCA1, WWP1
WNT SIGNALING PATHWAY FZD7, SOX17, TCF7L1, SKP1, SFRP1, FZD8
O GLYCAN BIOSYNTHESIS GALNT3, GALNT7, GALNT11, GALNT6, GCNT3, B4GALT5, GALNT8, C1GALT1, GALNT12, GCNT4, GALNT14, GALNT10, GALNT2, ST3GAL2, GCNT1, ST3GAL1, C1GALT1C1, GALNT1
ADHERENS JUNCTION EGFR, ERBB2, TCF7L1, TCF7L2, MET, RAC3, SMAD3, MLLT4, RHOA
ERBB SIGNALING PATHWAY EGFR, NCK2, ERBB2, AKT3, PAK4, EREG, MAPK9, AKT2
NITROGEN METABOLISM CA12, CA5A, CA9, GLUL, CA3, CA14, CA8, CA7, CA5B, GLUD1, CA2, AMT, CA6, CA1, CTH, GLS2, GLUD2, HAL, CA4, ASNS, CPS1
DORSO VENTRAL AXIS FORMATION EGFR, NOTCH1, GRB2, MAPK3, NOTCH3, SOS1, CPEB1, PIWIL2 ETS2, MAPK1, NOTCH4, ETV6, PIWIL1, MAP2K1, NOTCH2, SOS2, ETS1, ETV7, KRAS
ENDOMETRIAL CANCER EGFR, TCF7L1, ERBB2, TCF7L2, MLH1, ELK1, NRAS, AKT3, ARAF, CTNNA2, PIK3CB, AKT2, CCND1, FOXO3, LEF1
NON SMALL CELL LUNG CANCER EGFR, AKT3, E2F3, ERBB2, BAD, E2F1, RARB, CDKN2A, PLCG2, GRB2, HRAS, MAPK3, PIK3CD, RXRG, TGFA
PANCREATIC CANCER EGFR, ERBB2, AKT3, CDKN2A, MAPK9, PLD1, RAC3, RALA, CCND1, E2F3, JAK1, PIK3R1
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