Response to type II interferon

Across TCGA cell cohorts, RNA activity of the Response to type II interferon 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 AMIGO2, CRACD, and ME2, 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, Response to type II interferon activity versus AMIGO2 in STOMACH (Pearson r = -0.69).

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	AMIGO2 →	-4.011	-0.405	.002	<.001	3	6
LUNG_SCLC	CRACD →	+1.491	+0.181	<.001	.005	3	6
LARGE_INTESTINE	ME2 →	+0.904	+0.189	<.001	<.001	3	6
LUNG_SCLC	TDRD3 →	+0.946	+0.229	.009	.003	3	6
BLOOD_Leukemia	CBX5 →	+0.942	+0.168	<.001	<.001	3	6
OESOPHAGUS	MRPS14 →	+0.411	+0.212	.008	.009	3	6

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

GO:0034341 vs AMIGO2 — STOMACH

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