# GeDiPNet Cluster 109 -- Enriched Pathways -- generated 2026-10-08 08:04:27
# Pathway enrichment: KEGG + Reactome, upper-tail hypergeometric test, Benjamini-Hochberg FDR-corrected. Fold enrichment = (overlap / cluster gene count) / (pathway gene count / universe size). Top 15 pathways per cluster by q-value. See scripts/build_cluster_enrichment.php on gedipnet.bicnirrh.res.in. Data as of: 2026-10-08 03:30:07.
Pathway	Source	Overlap Genes	Overlap Gene Names	Pathway Gene Count	Cluster Gene Count	Fold Enrichment	P-value	FDR Q-value
Resolution of D-loop Structures through Holliday Junction Intermediates	Reactome	15	ATM, PALB2, RAD51D, BRCA1, BRCA2, XRCC2, BARD1, BRIP1, GEN1, MRE11, NBN, RAD50	33	96	56.87	1.023e-23	1.320e-20
Homologous DNA Pairing and Strand Exchange	Reactome	13	ATM, PALB2, RAD51D, BRCA1, BRCA2, XRCC2, BARD1, BRIP1, MRE11, NBN, RAD50, RAD51	25	96	65.05	1.126e-21	1.016e-18
Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA)	Reactome	13	ATM, PALB2, RAD51D, BRCA1, BRCA2, XRCC2, BARD1, BRIP1, MRE11, NBN, RAD50, RAD51	26	96	62.55	2.237e-21	1.924e-18
HDR through Homologous Recombination (HRR)	Reactome	14	ATM, PALB2, RAD51D, POLE, BRCA1, BRCA2, XRCC2, BARD1, BRIP1, MRE11, NBN, RAD50	48	96	36.49	6.277e-19	3.745e-16
Presynaptic phase of homologous DNA pairing and strand exchange	Reactome	13	ATM, RAD51D, BRCA1, BRCA2, XRCC2, ATRIP, BARD1, BRIP1, MRE11, NBN, RAD50, RAD51	39	96	41.70	1.607e-18	8.958e-16
Homologous recombination	KEGG	13	ATM, PALB2, RAD51D, BRCA1, BRCA2, RAD54L, XRCC2, BARD1, BRIP1, MRE11, NBN, RAD50	41	96	39.67	3.440e-18	1.827e-15
Colorectal cancer	KEGG	14	MLH1, MSH2, MSH6, TGFBR2, APC, TP53, PIK3CA, KRAS, MSH3, SMAD2, SMAD3, SMAD4	87	96	20.13	5.481e-15	1.666e-12
Cellular senescence	KEGG	16	ATM, CHEK2, RB1, TGFBR2, TP53, MRE11, NBN, PIK3CA, RAD50, E2F4, KRAS, SMAD2	157	96	12.75	9.046e-14	2.246e-11
HDR through Single Strand Annealing (SSA)	Reactome	10	ATM, BRCA1, ATRIP, BARD1, BRIP1, MRE11, NBN, RAD50, RAD51, EXO1	37	96	33.81	1.921e-13	4.432e-11
Hepatocellular carcinoma	KEGG	16	RB1, TGFBR2, APC, TP53, PIK3CA, SMARCA4, GSTM1, GSTT1, KRAS, SMAD2, SMAD3, SMAD4	170	96	11.77	3.166e-13	7.026e-11
Fanconi anemia pathway	KEGG	11	MLH1, PALB2, PMS2, BRCA1, BRCA2, ATRIP, BRIP1, FANCM, RAD51, SLX4, FAN1	54	96	25.48	3.411e-13	7.494e-11
Pathways in cancer	KEGG	25	MLH1, MSH2, MSH6, RB1, TGFBR2, APC, TP53, BRCA2, CDH1, PIK3CA, RAD51, CDKN1B	533	96	5.87	3.425e-13	7.510e-11
Pancreatic cancer	KEGG	12	RB1, TGFBR2, TP53, BRCA2, PIK3CA, RAD51, KRAS, SMAD2, SMAD3, SMAD4, TGFBR1, VEGFA	77	96	19.50	8.051e-13	1.673e-10
Gastric cancer	KEGG	14	MLH1, RB1, TGFBR2, APC, TP53, CDH1, PIK3CA, CDKN1B, KRAS, SMAD2, SMAD3, SMAD4	150	96	11.68	1.210e-11	2.035e-9
G2/M DNA damage checkpoint	Reactome	11	ATM, CHEK2, TP53, BRCA1, ATRIP, BARD1, BRIP1, MRE11, NBN, RAD50, EXO1	84	96	16.38	5.442e-11	7.852e-9