Response to vitamin

Across TCGA cell cohorts, RNA activity of the Response to vitamin pathway is significantly associated with the RNA expression of multiple genes, with the OESOPHAGUS cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are LBX2, NRP2, and DENND2B, 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, LBX2 grouped by Response to vitamin-low versus -high activity in OESOPHAGUS.

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
OESOPHAGUS	LBX2 →	+1.350	+0.154	<.001	.002	3	4
BREAST	NRP2 →	-2.570	-0.153	<.001	.002	3	4
BREAST	DENND2B →	-1.493	-0.146	.001	<.001	3	4
URINARY_TRACT	TM7SF2 →	+1.387	+0.364	.007	.003	3	3
URINARY_TRACT	OST4 →	+0.477	+0.395	.002	.004	3	3
CNS	SOS2 →	-0.404	-0.663	.007	.001	3	3

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

LBX2 by Response to vitamin activity — OESOPHAGUS

Explore this box plot interactively →