L-serine catabolic process

Across TCGA cell cohorts, RNA activity of the L-serine catabolic process pathway is significantly associated with the RNA expression of multiple genes, with the LARGE_INTESTINE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SNX17, CCDC90B, and CNEP1R1, each associated with the pathway in up to 4 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, L-serine catabolic process activity versus SNX17 in LARGE_INTESTINE (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
LARGE_INTESTINE	SNX17 →	-0.570	-0.124	.001	.003	3	4
LUNG_NSCLC_LUAD	CCDC90B →	-1.335	-0.164	.004	.004	3	3
LUNG_NSCLC_LUAD	CNEP1R1 →	-1.043	-0.155	.007	.002	3	3
LARGE_INTESTINE	STRADA →	-0.980	-0.155	.003	.004	3	3
SKIN	KCTD2 →	-0.597	-0.109	.008	.003	3	3
CNS	KLK11 →	+0.076	+0.131	.005	.004	3	3

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

GO:0006565 vs SNX17 — LARGE_INTESTINE

Explore this scatter interactively →