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 RNA expression of multiple genes, with the BLOOD_Lymphoma cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NEFM, PIK3R3, and GABBR2, each associated with the pathway in up to 1 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, Regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II activity versus NEFM in BLOOD_Lymphoma (Pearson r = -0.71).

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
BLOOD_Lymphoma	NEFM →	-0.042	-1.742	.008	.002	3	1
BLOOD_Lymphoma	PIK3R3 →	+0.742	+1.357	.009	.009	3	1
BLOOD_Lymphoma	GABBR2 →	-0.097	-2.138	.001	<.001	3	1
BLOOD_Lymphoma	CTNND1 →	-1.385	-2.123	.006	<.001	3	1
BLOOD_Lymphoma	MYZAP →	-0.040	-1.587	.001	.001	3	1
BLOOD_Lymphoma	ZNF175 →	-1.029	-1.361	.004	.009	2	1

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

GO:0002580 vs NEFM — BLOOD_Lymphoma

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