DNA methylation-dependent heterochromatin formation

Across TCGA cell cohorts, RNA activity of the DNA methylation-dependent heterochromatin formation pathway is significantly associated with the RNA expression of multiple genes, with the BLOOD_Myeloma cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are WEE1, SUSD3, and ARHGAP23, each associated with the pathway in up to 5 cancer types. Since the analysis shows associations rather than directional relationships, both pathway-to-partner and partner-to-pathway views are reported.

Each partner is linked to its corresponding Q-omics profile. The scatter plot shows the strongest association, DNA methylation-dependent heterochromatin formation activity versus WEE1 in BLOOD_Myeloma (Pearson r = 0.86).

Pathway-associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (pathway→partner) and Y-score (partner→pathway) are standardized regression coefficients; both directions are reported because the association is undirected. The reported p-values are derived from the association test.

Lineage	Partner gene	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
BLOOD_Myeloma	WEE1 →	+1.807	+1.350	<.001	<.001	3	5
OVARY	SUSD3 →	+1.835	+1.087	.001	.002	2	5
OVARY	ARHGAP23 →	+2.415	+0.938	<.001	<.001	3	4
LIVER	EPHB2 →	+3.347	+1.281	.002	.003	3	4
LIVER	EVC2 →	-1.262	-1.150	.001	.004	3	4
PANCREAS	IPPK →	+0.738	+0.867	.003	.005	3	4

Each partner links to its Q-omics profile. Showing the 6 strongest associations by consensus.

GO:0006346 vs WEE1 — BLOOD_Myeloma

Explore this scatter interactively →