Antigen processing and presentation of exogenous peptide antigen via MHC class I

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

The most reproducible pathway-associated genes across cancer lineages are HLA-F, TLR2, and CSF1, 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 scatter plot shows the strongest association, Antigen processing and presentation of exogenous peptide antigen via MHC class I activity versus HLA-F in GBM (Pearson r = 0.33).

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
GBM	HLA-F →	+0.984	+0.367	<.001	<.001	3	5
BRCA	TLR2 →	+0.602	+0.216	.001	.003	3	4
BRCA	CSF1 →	+0.569	+0.215	.003	.002	3	4
CCRCC	CCR5 →	+0.694	+0.180	.002	.001	3	4
LSCC	CD7 →	+0.518	+0.238	.001	<.001	3	4
GBM	STX11 →	+0.414	+0.248	.004	.003	2	5

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

GO:0042590 vs HLA-F — GBM

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