Antigen processing and presentation of peptide antigen

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

The most reproducible pathway-associated genes across cancer lineages are ACCS, ARFIP1, and GTPBP1, 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 box plot shows the strongest association, ACCS grouped by Antigen processing and presentation of peptide antigen-low versus -high activity in LUNG_NSCLC_LUAD.

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
LUNG_NSCLC_LUAD	ACCS →	-0.192	-0.903	.007	.004	3	6
BLOOD_Leukemia	ARFIP1 →	-0.418	-1.017	<.001	.003	3	5
BLOOD_Leukemia	GTPBP1 →	-0.339	-1.017	.004	.006	3	5
BLOOD_Leukemia	ZNF496 →	-0.339	-1.313	.002	.001	3	5
BLOOD_Lymphoma	CAPN9 →	-0.220	-1.976	<.001	<.001	3	5
STOMACH	ANOS1 →	-0.148	-1.231	.001	<.001	3	4

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

ACCS by Antigen processing and presentation of peptide antigen activity — LUNG_NSCLC_LUAD

Explore this box plot interactively →