Late endosome to vacuole transport

Across TCGA patient cohorts, RNA activity of the Late endosome to vacuole transport pathway is significantly associated with the RNA expression of multiple genes, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are DUSP9, GRAMD2A, and TAS2R31, 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 scatter plot shows the strongest association, Late endosome to vacuole transport activity versus DUSP9 in GBM (Pearson r = -0.28).

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
GBM	DUSP9 →	-0.411	-0.101	.005	.003	3	4
GBM	GRAMD2A →	-0.484	-0.107	.006	.001	3	4
HNSC	TAS2R31 →	-0.763	-0.145	.006	.001	3	4
BRCA	SNHG3 →	-0.912	-0.212	<.001	<.001	3	3
COAD	LINC02562 →	+0.737	+0.155	.006	.001	3	3
GBM	FAM186B →	-0.316	-0.117	.002	.002	2	4

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

GO:0045324 vs DUSP9 — GBM

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