Pigment cell differentiation

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

The most reproducible pathway-associated genes across cancer lineages are FGFR3, LYL1, and SAMD12, 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, Pigment cell differentiation activity versus FGFR3 in SKIN (Pearson r = -0.56).

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
SKIN	FGFR3 →	-1.449	-1.365	<.001	<.001	3	4
LUNG_NSCLC_LUSC	LYL1 →	+1.687	+1.808	.002	<.001	3	4
CNS	SAMD12 →	-0.860	-1.132	.006	<.001	3	3
SOFT_TISSUE	FAM167B →	+1.662	+2.153	.002	<.001	3	3
SOFT_TISSUE	MANSC4 →	+0.098	+1.691	.003	.001	3	3
LUNG_SCLC	ATF7IP2 →	-1.529	-0.742	.002	.004	3	3

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

GO:0050931 vs FGFR3 — SKIN

Explore this scatter interactively →