Epigenetic programming of gene expression

Across TCGA cell cohorts, RNA activity of the Epigenetic programming of gene expression pathway is significantly associated with the RNA expression of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ZNF749, PPM1H, and GNG2, each associated with the pathway in up to 4 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 box plot shows the strongest association, ZNF749 grouped by Epigenetic programming of gene expression-low versus -high activity in BONE.

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
BONE	ZNF749 →	+1.310	+0.446	.009	<.001	3	4
URINARY_TRACT	PPM1H →	+1.625	+0.429	.005	.007	3	4
SKIN	GNG2 →	-1.328	-0.212	.004	.001	3	4
LUNG_NSCLC_LUAD	DHX34 →	+0.423	+0.176	.007	.002	3	4
LIVER	AVL9 →	+0.840	+0.249	.001	.001	3	3
SKIN	HSPA9 →	+0.652	+0.232	.002	.002	3	3

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

ZNF749 by Epigenetic programming of gene expression activity — BONE

Explore this box plot interactively →