Synaptic vesicle lumen acidification

Across TCGA cell cohorts, RNA activity of the Synaptic vesicle lumen 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 CDK5RAP1, SELENBP1, and EME2, each associated with the pathway in up to 6 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, CDK5RAP1 grouped by Synaptic vesicle lumen 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	CDK5RAP1 →	+0.583	+0.319	.003	.003	2	6
BREAST	SELENBP1 →	-2.201	-0.181	.008	.001	3	5
BLOOD_Myeloma	EME2 →	-1.322	-0.291	<.001	<.001	3	4
STOMACH	IL1RAP →	+1.635	+0.238	.002	<.001	3	4
SOFT_TISSUE	TNFAIP3 →	+3.099	+0.243	<.001	.001	2	5
SOFT_TISSUE	RNFT1 →	-0.751	-0.250	.008	.003	2	5

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

CDK5RAP1 by Synaptic vesicle lumen acidification activity — BLOOD_Leukemia

Explore this box plot interactively →