Regulation of antigen processing and presentation of peptide antigen

Across TCGA cell cohorts, RNA activity of the Regulation of antigen processing and presentation of peptide antigen pathway is significantly associated with the shRNA dependency of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are TAPBPL, HFE, and TREM2, each associated with the pathway in up to 12 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 box plot shows the strongest association, TAPBPL grouped by Regulation of antigen processing and presentation of peptide antigen-low versus -high activity in BONE.

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	TAPBPL →	-0.292	-1.638	.003	<.001	2	12
BLOOD_Leukemia	HFE →	-0.444	-1.706	.002	<.001	3	9
PANCREAS	TREM2 →	-0.207	-1.401	<.001	<.001	3	7
CNS	PYCARD →	-0.249	-0.729	<.001	.002	3	6
LUNG_NSCLC_LUSC	PTPMT1 →	-0.164	-0.739	.002	.006	3	6
BLOOD_Leukemia	RRM2 →	-0.252	-0.930	.007	.004	2	6

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

TAPBPL by Regulation of antigen processing and presentation of peptide antigen activity — BONE

Explore this box plot interactively →