Antigen processing and presentation

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

The most reproducible pathway-associated genes across cancer lineages are APOBEC3H, SASH3, and CXCL9, 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, Antigen processing and presentation activity versus APOBEC3H in COAD (Pearson r = 0.44).

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
COAD	APOBEC3H →	+0.794	+0.202	<.001	<.001	3	10
OV	SASH3 →	+1.009	+0.163	<.001	<.001	3	10
HNSC	CXCL9 →	+2.013	+0.230	<.001	<.001	3	10
OV	HCLS1 →	+1.087	+0.192	.001	.005	3	10
GBM	CD74 →	+1.167	+0.224	<.001	<.001	3	10
GBM	HLA-DQA1 →	+1.319	+0.228	<.001	<.001	3	10

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

GO:0019882 vs APOBEC3H — COAD

Explore this scatter interactively →