DE-6

Supermodule 661 genes

DNA replication and repair machinery

This 662-gene module includes BRCA1, BRCA2, EZH2, ESR2, and MLH1, with strong enrichment for DNA replication, DNA repair, replication fork components, and DNA helicase activity. Knockdown of SMAD5, FOXH1, HNF1B, and GRHL2 activates this module. Knockdown of ARID1A, SMARCC1, SNAI1, ETV5, and SOX18 represses this module.

Key terms: DNA metabolic process DNA replication DNA-templated DNA replication DNA damage response DNA repair Notable genes: BRCA1 BRCA2 EZH2 ESR2 MLH1 E2F1 F3 DNMT1 Top TFs: ARID1A SMAD5 FOXH1 SMARCC1 HNF1B

TF Regulatory Network

Direction indicates the effect of TF knockdown on this module (↑ = KD upregulates; ↓ = KD downregulates).

Perturbation + Binding ↑ ↓

Perturbation only ↑ ↓

Binding only

TF	Dir	NES	#gRNA	padj	Bind	OR

Submodules (19)

Finer-grained co-expression clusters within this supermodule, each with a distinct functional signature.

Submodule	Genes	Notable genes
DE-6.1	55	BRCA1 EZH2 CHEK1 PRKDC CCNE1
DE-6.2	29	GRK2 PAK4 SOCS2 CSNK1E MAP2K7
DE-6.3	24	PROM1 MCM2 POLE RNF168 STAG2
DE-6.4	22	INSR AIM2 DGCR8 MYO9B VAV2
DE-6.5	21	DAXX RAD51C PARP2 FANCG CISD2
DE-6.6	20	TYMS PCNA FEN1 RRM2 DEK
DE-6.7	20	MBD4 MAZ TXNDC5 ING2 PLEKHO1
DE-6.8	19	FANCD2 RAD18 LIG1 CDC7 KCNQ3
DE-6.9	19	MLH1 ING5 SETMAR CAD SECISBP2
DE-6.10	18	PLK4 DPYSL2 TIMELESS NET1 ERCC6L
DE-6.11	18	SIGMAR1 SV2A SLC5A6 HERC5 MYCBP
DE-6.12	13	CHAMP1 PLIN2 RBM14 CENPS PUS1
DE-6.13	12	H1-2 H1-4 H2AC20 H1-5 H1-3
DE-6.14	12	E2F1 CASP8AP2 CCNE2 CDC45 MCM6
DE-6.15	12	MRE11 DDX11 RAD54B MOB3B CNTLN
DE-6.16	12	SIAH1 RBM10 BICD2 PLEKHG2 SP2
DE-6.17	12	EHMT2 PRMT6 EFTUD2 RHOT2 METTL13
DE-6.18	11	MTHFD1 TRA2B RMI1 UBA2 NAA50
DE-6.19	10	SH3GL2 CTDSPL FAM161A ZNF385B SFI1

Module Genes

All genes assigned to this co-expression supermodule.

Gene	Type	Submodule	Publications

Enriched Terms

GO terms and pathway annotations enriched in this gene set (g:Profiler).