Pigment cell differentiation

Across TCGA cell cohorts, RNA activity of the Pigment cell differentiation pathway is significantly associated with the shRNA dependency of multiple genes, with the LUNG_SCLC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ADAMTS20, SOD2, and ITSN1, each associated with the pathway in up to 7 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, ADAMTS20 grouped by Pigment cell differentiation-low versus -high activity in LUNG_SCLC.

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
LUNG_SCLC	ADAMTS20 →	-0.441	-1.270	<.001	.001	3	7
BREAST	SOD2 →	-0.404	-0.936	.003	<.001	3	7
BLOOD_Myeloma	ITSN1 →	-0.317	-1.678	.006	.001	3	6
OVARY	OCA2 →	-0.415	-1.297	<.001	<.001	3	6
LIVER	CRKL →	+0.451	+1.695	<.001	<.001	3	6
CNS	ITPR3 →	-0.302	-0.831	<.001	.006	3	5

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

ADAMTS20 by Pigment cell differentiation activity — LUNG_SCLC

Explore this box plot interactively →