Vitamin D metabolic process

Across TCGA cell cohorts, RNA activity of the Vitamin D metabolic process pathway is significantly associated with the shRNA dependency of multiple genes, with the LIVER cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are OR2AT4, CHD8, and TNKS2, each associated with the pathway in up to 2 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, OR2AT4 grouped by Vitamin D metabolic process-low versus -high activity in LIVER.

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
LIVER	OR2AT4 →	+0.146	+1.931	<.001	<.001	3	2
LIVER	CHD8 →	+0.293	+1.931	.005	<.001	3	1
LIVER	TNKS2 →	-0.146	-1.931	.006	<.001	3	1
LIVER	POLR3G →	-0.253	-1.931	.001	<.001	3	1
LIVER	MED13L →	-0.166	-1.931	.003	<.001	3	1
LIVER	EFNB2 →	+0.103	+1.931	.008	<.001	3	1

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

OR2AT4 by Vitamin D metabolic process activity — LIVER

Explore this box plot interactively →