Secondary metabolic process

Across TCGA patient cohorts, RNA activity of the Secondary metabolic 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 AKR1C3, HDGFL2_S625, and AKAP13_S2498, 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, Secondary metabolic process activity versus AKR1C3 in LSCC (Pearson r = 0.22).

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	AKR1C3 →	+1.527	+0.305	<.001	.001	3	5
COAD	HDGFL2_S625 →	-0.549	-0.141	.003	.001	2	4
BRCA	AKAP13_S2498 →	-1.267	-0.220	<.001	<.001	2	4
GBM	PRPF4B_S431 →	-0.708	-0.677	<.001	<.001	3	3
OV	SYNPO_S758 →	+1.726	+0.398	<.001	<.001	3	3
BRCA	ZNF644_S1189 →	-0.779	-0.235	<.001	<.001	3	3

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

GO:0019748 vs AKR1C3 — LSCC

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