Regulation of SMAD protein signal transduction

Across TCGA cell cohorts, RNA activity of the Regulation of SMAD protein signal transduction pathway is significantly associated with the RNA expression of multiple genes, with the STOMACH cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are CIPC, PACS2, and PHF12, 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, CIPC grouped by Regulation of SMAD protein signal transduction-low versus -high activity in STOMACH.

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
STOMACH	CIPC →	+0.646	+0.147	.003	.004	3	4
STOMACH	PACS2 →	+1.236	+0.224	.005	.004	3	4
KIDNEY	PHF12 →	+1.184	+0.336	.001	<.001	2	4
KIDNEY	ARHGEF4 →	+1.760	+0.282	.002	<.001	2	4
STOMACH	IFNLR1 →	+1.438	+0.151	.001	.005	3	3
SOFT_TISSUE	TXNRD1 →	-1.228	-0.407	.001	<.001	3	3

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

CIPC by Regulation of SMAD protein signal transduction activity — STOMACH

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