Cellular response to retinoic acid

Across TCGA patient cohorts, RNA activity of the Cellular response to retinoic acid pathway is significantly associated with the RNA expression of multiple genes, with the LUAD cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SETD4, NCF1, and ARL4C, 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 scatter plot shows the strongest association, Cellular response to retinoic acid activity versus SETD4 in LUAD (Pearson r = -0.22).

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
LUAD	SETD4 →	-0.265	-0.129	<.001	<.001	3	4
BRCA	NCF1 →	+0.658	+0.194	.002	.007	3	4
BRCA	ARL4C →	+0.487	+0.123	.003	.005	3	4
BRCA	FBXL17 →	-0.528	-0.253	.005	<.001	3	3
UCEC	EMILIN2 →	+0.650	+0.154	.002	.001	3	3
BRCA	SMO →	+0.802	+0.146	.001	<.001	2	4

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

GO:0071300 vs SETD4 — LUAD

Explore this scatter interactively →