Pigment granule localization

Across TCGA patient cohorts, RNA activity of the Pigment granule localization pathway is significantly associated with the protein abundance of multiple proteins, with the BRCA cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are SHROOM2, SHROOM2_S779, and BCLAF3_S15, 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 scatter plot shows the strongest association, Pigment granule localization activity versus SHROOM2 in BRCA (Pearson r = 0.47).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
BRCA	SHROOM2 →	+0.497	+0.038	<.001	<.001	2	7
BRCA	SHROOM2_S779 →	+0.954	+0.032	<.001	<.001	3	5
BRCA	BCLAF3_S15 →	+0.456	+0.027	<.001	.005	3	5
BRCA	IFT74 →	+0.318	+0.030	<.001	<.001	3	5
BRCA	ARL3 →	+0.492	+0.033	<.001	<.001	3	5
UCEC	SHROOM2_S1297 →	+0.232	+0.035	.003	<.001	3	4

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

GO:0051875 vs SHROOM2 — BRCA

Explore this scatter interactively →