Peptide antigen assembly with MHC class II protein complex

Across TCGA cell cohorts, RNA activity of the Peptide antigen assembly with MHC class II protein complex pathway is significantly associated with the shRNA dependency of multiple genes, with the BREAST cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HLA-DRB3, PRPF8, and HLA-DQB1, 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, HLA-DRB3 grouped by Peptide antigen assembly with MHC class II protein complex-low versus -high activity in BREAST.

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
BREAST	HLA-DRB3 →	-0.238	-0.956	.001	<.001	3	5
BLOOD_Leukemia	PRPF8 →	-0.291	-1.344	<.001	<.001	3	5
OESOPHAGUS	HLA-DQB1 →	-0.271	-1.560	.002	.001	3	5
PANCREAS	FUBP3 →	-0.336	-1.519	.005	.001	2	5
STOMACH	FCRL3 →	-0.225	-1.197	.008	.007	2	5
LARGE_INTESTINE	RPS6 →	-0.184	-1.358	.003	<.001	3	4

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

HLA-DRB3 by Peptide antigen assembly with MHC class II protein complex activity — BREAST

Explore this box plot interactively →