Regulation of collagen metabolic process

Across TCGA cell cohorts, RNA activity of the Regulation of collagen metabolic process pathway is significantly associated with the RNA expression of multiple genes, with the LIVER cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VIM, PLIN3, and AKAP12, each associated with the pathway in up to 10 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, Regulation of collagen metabolic process activity versus VIM in LIVER (Pearson r = 0.85).

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
LIVER	VIM →	+8.330	+0.559	<.001	.001	3	10
LUNG_NSCLC_LUAD	PLIN3 →	+1.000	+0.267	.001	.001	3	7
BLOOD_Leukemia	AKAP12 →	+2.019	+0.282	.008	<.001	3	6
BLOOD_Leukemia	CD59 →	+1.672	+0.179	.004	.005	3	6
STOMACH	ATP8B3 →	+2.040	+0.335	<.001	<.001	3	6
BREAST	PRXL2C →	+1.098	+0.282	.004	.004	3	6

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

GO:0010712 vs VIM — LIVER

Explore this scatter interactively →