Dense core granule localization

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

The most reproducible pathway-associated genes across cancer lineages are TOE1, SHROOM4, and PHLDA3, each associated with the pathway in up to 5 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, TOE1 grouped by Dense core granule localization-low versus -high activity in OESOPHAGUS.

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
OESOPHAGUS	TOE1 →	+0.807	+1.451	.003	<.001	3	4
OVARY	SHROOM4 →	-1.254	-1.330	<.001	.002	3	4
OVARY	PHLDA3 →	-2.115	-1.132	.001	<.001	2	5
LARGE_INTESTINE	LIN52 →	+0.574	+1.298	<.001	<.001	3	4
CNS	FBXO32 →	-1.222	-0.942	.008	<.001	3	4
SKIN	A2M →	-2.942	-1.208	.002	.001	3	4

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

TOE1 by Dense core granule localization activity — OESOPHAGUS

Explore this box plot interactively →