DNA methylation-dependent heterochromatin formation

Across TCGA patient cohorts, RNA activity of the DNA methylation-dependent heterochromatin formation pathway is significantly associated with the protein abundance of multiple proteins, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are BRD3, PAFAH2, and CLASP1_S594, each associated with the pathway in up to 6 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 BRD3 in GBM (Pearson r = 0.35).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
GBM	BRD3 →	+0.253	+0.043	<.001	<.001	3	6
UCEC	PAFAH2 →	-0.481	-0.090	<.001	<.001	3	6
OV	CLASP1_S594 →	+1.227	+0.082	<.001	.001	3	6
CCRCC	PATJ →	-0.194	-0.036	.001	.003	3	6
GBM	ARID1B →	+0.182	+0.039	<.001	<.001	3	6
HNSC	TRIM28 →	+0.275	+0.086	<.001	<.001	3	6

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

GO:0006346 vs BRD3 — GBM

Explore this scatter interactively →