Positive regulation of antigen processing and presentation

Across TCGA cell cohorts, RNA activity of the Positive regulation of antigen processing and presentation pathway is significantly associated with the RNA expression of multiple genes, with the LARGE_INTESTINE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are AXL, VPS50, and PDLIM5, 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, AXL grouped by Positive regulation of antigen processing and presentation-low versus -high activity in LARGE_INTESTINE.

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
LARGE_INTESTINE	AXL →	-2.379	-1.062	.008	.009	3	6
STOMACH	VPS50 →	-0.725	-0.833	.001	.007	3	4
UPPER_AERODIGESTIVE_TRACT	PDLIM5 →	-1.390	-1.279	.001	.005	3	4
UPPER_AERODIGESTIVE_TRACT	CASP8 →	-1.045	-1.061	.006	.004	3	4
LUNG_SCLC	NMI →	-2.085	-1.045	<.001	.001	3	4
BREAST	TRIM6 →	-1.327	-0.922	.008	.003	3	4

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

AXL by Positive regulation of antigen processing and presentation activity — LARGE_INTESTINE

Explore this box plot interactively →