Antigen processing and presentation of peptide antigen via MHC class I

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

The most reproducible pathway-associated genes across cancer lineages are PSMB9, PSMB8, and HLA-C, each associated with the pathway in up to 14 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 antigen via MHC class I activity versus PSMB9 in BONE (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
BONE	PSMB9 →	+4.152	+0.529	.003	.004	3	14
BREAST	PSMB8 →	+2.160	+0.353	.002	<.001	3	14
LIVER	HLA-C →	+3.892	+0.563	.003	.005	3	14
LIVER	HLA-B →	+5.155	+0.542	.007	.001	1	14
BONE	TAP1 →	+3.345	+0.556	.001	.003	3	12
BREAST	HLA-A →	+2.870	+0.414	<.001	<.001	3	12

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

GO:0002474 vs PSMB9 — BONE

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