Establishment of pigment granule localization

Across TCGA cell cohorts, RNA activity of the Establishment of pigment granule localization pathway is significantly associated with the RNA expression of multiple genes, with the SOFT_TISSUE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are RSPH3, PACS1, and TMEM62, each associated with the pathway in up to 6 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, RSPH3 grouped by Establishment of pigment granule localization-low versus -high activity in SOFT_TISSUE.

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
SOFT_TISSUE	RSPH3 →	-1.268	-1.594	.002	<.001	3	5
SOFT_TISSUE	PACS1 →	-0.807	-1.301	.006	.002	3	5
LUNG_SCLC	TMEM62 →	-1.959	-1.566	.006	<.001	3	5
BLOOD_Leukemia	SLC10A3 →	-0.565	-1.229	.001	<.001	3	5
BLOOD_Leukemia	SERINC3 →	-0.617	-1.110	.006	.003	2	6
BONE	TM9SF1 →	-0.800	-1.580	.002	.009	2	6

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

RSPH3 by Establishment of pigment granule localization activity — SOFT_TISSUE

Explore this box plot interactively →