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 protein abundance of multiple proteins, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are IKBKB, RPL5, and SERBP1, each associated with the pathway in up to 7 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 IKBKB in LSCC (Pearson r = 0.28).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
LSCC	IKBKB →	+0.264	+0.051	.001	<.001	3	7
LUAD	RPL5 →	-0.177	-0.053	<.001	<.001	3	6
COAD	SERBP1 →	-0.207	-0.042	.003	.001	3	6
LUAD	CLUH →	-0.323	-0.105	<.001	<.001	3	6
GBM	RFC2 →	-0.344	-0.072	<.001	<.001	3	5
GBM	ADNP_S98 →	-1.022	-0.122	<.001	<.001	3	5

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

GO:0042590 vs IKBKB — LSCC

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