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

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

The most reproducible pathway-associated genes across cancer lineages are PPP1R12A, CDH23, and UQCRC1, 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, PPP1R12A grouped by Regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II-low versus -high activity in BONE.

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
BONE	PPP1R12A →	+0.470	+2.174	.004	<.001	3	6
LUNG_SCLC	CDH23 →	+0.209	+1.250	.004	.003	3	5
PANCREAS	UQCRC1 →	-0.203	-1.337	.001	.001	3	4
PANCREAS	POLN →	+0.238	+0.774	.002	.006	3	4
BONE	MAX →	-0.616	-1.736	<.001	.007	2	5
SOFT_TISSUE	APOA5 →	-0.180	-1.802	.006	<.001	3	4

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

PPP1R12A by Regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II activity — BONE

Explore this box plot interactively →