Phagosome acidification

Across TCGA cell cohorts, RNA activity of the Phagosome acidification pathway is significantly associated with the RNA expression of multiple genes, with the LUNG_NSCLC_LUSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are RAB39A, SLC4A7, and DBF4B, each associated with the pathway in up to 10 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, Phagosome acidification activity versus RAB39A in LUNG_NSCLC_LUSC (Pearson r = -0.49).

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
LUNG_NSCLC_LUSC	RAB39A →	-1.797	-0.193	.001	<.001	3	10
PANCREAS	SLC4A7 →	+1.526	+0.159	<.001	.005	3	7
LUNG_NSCLC_LUSC	DBF4B →	-0.767	-0.120	.005	.006	3	7
LARGE_INTESTINE	RFC4 →	-0.548	-0.128	.001	.003	3	6
CNS	TAF5 →	-0.595	-0.141	<.001	.001	3	6
LUNG_NSCLC_LUSC	PLEKHO1 →	-2.245	-0.154	.002	.009	2	7

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

GO:0090383 vs RAB39A — LUNG_NSCLC_LUSC

Explore this scatter interactively →