Negative regulation of retinoic acid receptor signaling pathway

Across TCGA patient cohorts, RNA activity of the Negative regulation of retinoic acid receptor signaling pathway pathway is significantly associated with the RNA expression of multiple genes, with the HNSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are CDT1, CENPM, and CDCA3, 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, Negative regulation of retinoic acid receptor signaling pathway activity versus CDT1 in HNSC (Pearson r = 0.30).

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
HNSC	CDT1 →	+0.941	+0.729	<.001	.001	3	6
HNSC	CENPM →	+0.875	+0.575	<.001	.001	3	5
BRCA	CDCA3 →	+1.342	+0.556	<.001	<.001	3	5
HNSC	PKN3 →	+0.644	+0.639	.002	.004	3	5
LSCC	EME1 →	+0.737	+0.525	<.001	.001	3	5
BRCA	MYBL2 →	+2.028	+0.458	<.001	.006	3	5

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

GO:0048387 vs CDT1 — HNSC

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