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 LARGE_INTESTINE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are RPS25, LMNA, and RPS8, 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 scatter plot shows the strongest association, Antigen processing and presentation of peptide or polysaccharide antigen via MHC class II activity versus RPS25 in LARGE_INTESTINE (Pearson r = -0.50).

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
LARGE_INTESTINE	RPS25 →	-0.565	-0.307	<.001	<.001	3	6
SOFT_TISSUE	LMNA →	+1.224	+0.343	.001	<.001	3	5
LIVER	RPS8 →	-0.635	-0.342	<.001	<.001	3	5
BLOOD_Myeloma	BHLHE40 →	+1.916	+0.434	.001	<.001	3	4
BLOOD_Myeloma	HLA-DPB1 →	+4.605	+0.500	.001	.003	3	4
SKIN	NFIC →	+1.129	+0.319	.002	.009	3	4

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

GO:0002504 vs RPS25 — LARGE_INTESTINE

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