Eye pigmentation

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

The most reproducible pathway-associated genes across cancer lineages are EFR3A, NDUFC1, and CTTNBP2NL, 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, EFR3A grouped by Eye pigmentation-low versus -high activity in BONE.

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
BONE	EFR3A →	-2.019	-2.023	<.001	<.001	3	4
URINARY_TRACT	NDUFC1 →	-0.939	-1.264	.009	.009	3	3
URINARY_TRACT	CTTNBP2NL →	-0.850	-1.368	.001	<.001	3	3
BONE	GNA13 →	-1.330	-2.099	.005	<.001	3	3
SKIN	NAPG →	-0.424	-0.731	.001	.003	3	3
SKIN	KAZN →	-1.525	-0.907	<.001	.003	3	3

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

EFR3A by Eye pigmentation activity — BONE

Explore this box plot interactively →