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 BLOOD_Leukemia cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HSP90AA1, COQ3, and CARNMT1, each associated with the pathway in up to 5 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, HSP90AA1 grouped by Phagosome acidification-low versus -high activity in BLOOD_Leukemia.

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
BLOOD_Leukemia	HSP90AA1 →	-0.718	-1.542	.009	<.001	3	5
BREAST	COQ3 →	+0.401	+0.675	.007	.006	3	5
LUNG_NSCLC_LUAD	CARNMT1 →	+0.420	+0.692	.004	.005	3	5
BLOOD_Leukemia	GRIN2D →	+1.186	+0.956	.008	.003	2	5
BLOOD_Leukemia	TVP23C →	+1.204	+0.922	.005	.004	3	4
BREAST	CD163L1 →	+1.370	+0.926	.003	<.001	2	5

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

HSP90AA1 by Phagosome acidification activity — BLOOD_Leukemia

Explore this box plot interactively →