Late endosome to lysosome transport

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

The most reproducible pathway-associated genes across cancer lineages are LRRK2, SQOR, and SDC4, 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 lysosome transport activity versus LRRK2 in LSCC (Pearson r = -0.05).

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
LSCC	LRRK2 →	+1.575	+0.356	<.001	<.001	3	4
BRCA	SQOR →	+0.344	+0.148	.001	<.001	3	4
LSCC	SDC4 →	+0.550	+0.185	.001	<.001	3	4
BRCA	DOCK8 →	+0.526	+0.131	<.001	<.001	3	3
BRCA	DUSP1 →	+0.872	+0.105	.002	.003	3	3
LUAD	SDR16C5 →	+0.771	+0.114	<.001	.001	3	3

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

GO:1902774 vs LRRK2 — LSCC

Explore this scatter interactively →