Regulation of antigen processing and presentation

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

The most reproducible pathway-associated genes across cancer lineages are TMEM198, EMP1, and H3-3B, each associated with the pathway in up to 4 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, Regulation of antigen processing and presentation activity versus TMEM198 in LARGE_INTESTINE (Pearson r = 0.51).

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
LARGE_INTESTINE	TMEM198 →	+1.031	+1.208	.004	<.001	3	4
PANCREAS	EMP1 →	+2.905	+1.217	.008	.004	3	4
STOMACH	H3-3B →	+1.333	+1.313	<.001	.003	3	3
STOMACH	NAIF1 →	-0.775	-1.346	.002	.002	3	3
SKIN	MINK1 →	-0.509	-1.030	.001	.006	3	3
UPPER_AERODIGESTIVE_TRACT	PEX14 →	-0.665	-1.704	<.001	<.001	3	3

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

GO:0002577 vs TMEM198 — LARGE_INTESTINE

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