Indole-containing compound metabolic process

Across TCGA cell cohorts, RNA activity of the Indole-containing compound metabolic process 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 KLHL5, PEA15, and NDST1, each associated with the pathway in up to 12 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, Indole-containing compound metabolic process activity versus KLHL5 in STOMACH (Pearson r = -0.43).

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	KLHL5 →	-2.366	-0.140	.001	.003	3	12
BONE	PEA15 →	-2.153	-0.196	<.001	<.001	3	11
LIVER	NDST1 →	-1.587	-0.192	.003	.003	3	11
BONE	MYH9 →	-2.506	-0.145	<.001	<.001	3	11
BONE	SMAD7 →	-2.071	-0.170	<.001	<.001	3	11
LIVER	NOTCH2 →	-1.947	-0.245	<.001	<.001	3	10

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

GO:0042430 vs KLHL5 — STOMACH

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