Antigen processing and presentation

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

The most reproducible pathway-associated genes across cancer lineages are PSMB8, HLA-C, and HLA-A, each associated with the pathway in up to 15 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, Antigen processing and presentation activity versus PSMB8 in SOFT_TISSUE (Pearson r = 0.80).

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
SOFT_TISSUE	PSMB8 →	+5.022	+0.446	.001	.001	3	15
LIVER	HLA-C →	+3.421	+0.435	.005	.009	3	14
SOFT_TISSUE	HLA-A →	+3.051	+0.376	.001	<.001	3	13
LARGE_INTESTINE	B2M →	+1.734	+0.243	.007	.005	3	12
BREAST	HLA-B →	+3.288	+0.265	<.001	<.001	3	12
STOMACH	TAP1 →	+1.526	+0.384	.005	<.001	3	12

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

GO:0019882 vs PSMB8 — SOFT_TISSUE

Explore this scatter interactively →