Positive regulation of secondary metabolite biosynthetic process

Across TCGA patient cohorts, RNA activity of the Positive regulation of secondary metabolite biosynthetic process pathway is significantly associated with the protein abundance of multiple proteins, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are RFC1, SMARCA5, and FIG4, 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, Positive regulation of secondary metabolite biosynthetic process activity versus RFC1 in LSCC (Pearson r = -0.14).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
LSCC	RFC1 →	-0.304	-0.064	.001	<.001	3	6
HNSC	SMARCA5 →	-0.258	-0.066	<.001	<.001	3	6
OV	FIG4 →	+0.385	+0.056	.007	.001	3	6
LSCC	DNAJC19 →	-0.387	-0.073	.002	<.001	3	6
BRCA	KAT7 →	-0.309	-0.049	.001	.001	3	6
HNSC	STRBP →	-0.528	-0.083	<.001	<.001	3	6

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

GO:1900378 vs RFC1 — LSCC

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