Late endosome to vacuole transport

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

The most reproducible pathway-associated proteins across cancer lineages are PHRF1_S973, SF3B1_T235, and SIPA1_S839, 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 PHRF1_S973 in COAD (Pearson r = 0.36).

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
COAD	PHRF1_S973 →	+0.361	+0.240	<.001	<.001	3	4
BRCA	SF3B1_T235 →	-0.481	-0.187	.003	<.001	3	3
UCEC	SIPA1_S839 →	+0.616	+0.245	<.001	<.001	3	3
BRCA	TPMT_S14 →	+0.416	+0.184	.003	.001	3	3
COAD	UBE2O_T838 →	+0.826	+0.259	<.001	<.001	3	3
LSCC	CAPN1_S474 →	+0.617	+0.212	<.001	<.001	3	3

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

GO:0045324 vs PHRF1_S973 — COAD

Explore this scatter interactively →