Antigen processing and presentation of peptide or polysaccharide antigen via MHC class II

Across TCGA cell cohorts, RNA activity of the Antigen processing and presentation of peptide or polysaccharide antigen via MHC class II pathway is significantly associated with the RNA expression of multiple genes, with the LIVER cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are C1R, ARL6IP1, and DOCK11, 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, C1R grouped by Antigen processing and presentation of peptide or polysaccharide antigen via MHC class II-low versus -high activity in LIVER.

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
LIVER	C1R →	+3.090	+1.918	.001	<.001	3	5
BREAST	ARL6IP1 →	+0.705	+0.932	.005	.001	3	5
STOMACH	DOCK11 →	-2.333	-1.215	<.001	.001	2	4
LARGE_INTESTINE	OVOL3 →	-0.112	-1.440	.005	<.001	3	3
LARGE_INTESTINE	IPO11 →	+0.401	+0.802	.006	.004	3	3
BLOOD_Leukemia	FAM83G →	-1.049	-1.054	<.001	.005	3	3

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

C1R by Antigen processing and presentation of peptide or polysaccharide antigen via MHC class II activity — LIVER

Explore this box plot interactively →