Alpha-beta T cell differentiation

Across TCGA cell cohorts, RNA activity of the Alpha-beta T cell differentiation pathway is significantly associated with the RNA expression of multiple genes, with the BREAST cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NPEPPS, VMP1, and SP2, each associated with the pathway in up to 5 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, NPEPPS grouped by Alpha-beta T cell differentiation-low versus -high activity in BREAST.

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
BREAST	NPEPPS →	+0.871	+0.165	.002	<.001	3	5
LARGE_INTESTINE	VMP1 →	+0.612	+0.266	.004	<.001	3	4
BREAST	SP2 →	+0.763	+0.119	.004	.004	3	4
BREAST	ZNF226 →	+0.846	+0.163	<.001	<.001	3	4
BREAST	ITGA3 →	+1.916	+0.209	.002	<.001	3	4
LUNG_SCLC	FADD →	+1.257	+0.249	.007	.001	3	4

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

NPEPPS by Alpha-beta T cell differentiation activity — BREAST

Explore this box plot interactively →