Vesicle-mediated transport between endosomal compartments

Across TCGA cell cohorts, RNA activity of the Vesicle-mediated transport between endosomal compartments 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 H6PD, NIPAL1, and LGR4, 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, H6PD grouped by Vesicle-mediated transport between endosomal compartments-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	H6PD →	+1.402	+1.360	.006	.002	3	4
LIVER	NIPAL1 →	+0.681	+1.439	<.001	<.001	3	3
LIVER	LGR4 →	+1.968	+1.582	.001	<.001	3	3
KIDNEY	ITPKC →	+0.798	+1.267	.003	.005	3	3
CNS	KRAS →	-0.532	-1.199	.001	<.001	3	3
CNS	SPNS2 →	+0.859	+1.318	.006	<.001	3	3

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

H6PD by Vesicle-mediated transport between endosomal compartments activity — BONE

Explore this box plot interactively →