Negative regulation of antigen processing and presentation

Across TCGA cell cohorts, RNA activity of the Negative regulation of antigen processing and presentation 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 ACLY, MAX, and GRIK4, 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, ACLY grouped by Negative regulation of antigen processing and presentation-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	ACLY →	-0.277	-1.562	.003	.008	3	6
BONE	MAX →	-0.564	-2.073	<.001	<.001	3	5
LUNG_NSCLC_LUAD	GRIK4 →	-0.215	-0.493	<.001	.006	3	5
KIDNEY	OR1S2 →	+0.383	+0.278	<.001	.001	3	4
BONE	PCCA →	+0.368	+1.600	<.001	<.001	3	4
BONE	BCS1L →	-0.200	-1.754	.009	.002	3	4

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

ACLY by Negative regulation of antigen processing and presentation activity — BONE

Explore this box plot interactively →