Pigment catabolic process

Across TCGA cell cohorts, RNA activity of the Pigment catabolic process pathway is significantly associated with the shRNA dependency 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 BCOR, TMEM243, and RAPGEF5, 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 box plot shows the strongest association, BCOR grouped by Pigment catabolic process-low versus -high activity in LARGE_INTESTINE.

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	BCOR →	-0.211	-0.200	<.001	<.001	3	4
LUNG_SCLC	TMEM243 →	-0.256	-0.247	<.001	.002	3	4
BLOOD_Lymphoma	RAPGEF5 →	-0.329	-0.295	.003	.001	3	4
PANCREAS	RBM22 →	+0.304	+0.181	.002	<.001	3	3
BONE	ARAP3 →	+0.227	+0.151	.001	<.001	2	4
BONE	FFAR2 →	+0.175	+0.160	<.001	<.001	3	3

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

BCOR by Pigment catabolic process activity — LARGE_INTESTINE

Explore this box plot interactively →