Positive regulation of secondary metabolite biosynthetic process

Across TCGA cell cohorts, RNA activity of the Positive regulation of secondary metabolite biosynthetic process pathway is significantly associated with the RNA expression of multiple genes, with the KIDNEY cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SYAP1, PPIL4, and GNB5, each associated with the pathway in up to 5 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, Positive regulation of secondary metabolite biosynthetic process activity versus SYAP1 in KIDNEY (Pearson r = -0.75).

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
KIDNEY	SYAP1 →	-0.763	-1.918	.002	.004	3	5
LUNG_NSCLC_LUSC	PPIL4 →	-0.720	-1.771	.001	<.001	3	5
BLOOD_Lymphoma	GNB5 →	-0.881	-0.931	.002	.009	3	5
LUNG_NSCLC_LUAD	ARL3 →	-1.072	-0.983	.001	.006	3	5
LUNG_NSCLC_LUAD	ADGRB2 →	-1.698	-1.174	.001	.001	3	5
LUNG_NSCLC_LUAD	ZNF737 →	+1.225	+1.237	.003	<.001	3	5

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

GO:1900378 vs SYAP1 — KIDNEY

Explore this scatter interactively →