Negative regulation of amino acid transport

Across TCGA cell cohorts, RNA activity of the Negative regulation of amino acid transport pathway is significantly associated with the RNA expression of multiple genes, with the CNS cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are RETREG2, LMF1, and IDUA, 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, RETREG2 grouped by Negative regulation of amino acid transport-low versus -high activity in CNS.

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
CNS	RETREG2 →	+0.624	+0.830	<.001	.005	3	5
BLOOD_Leukemia	LMF1 →	+0.960	+1.051	.003	.001	3	5
LARGE_INTESTINE	IDUA →	+1.589	+1.146	<.001	.001	3	5
LARGE_INTESTINE	UBE2H →	+0.792	+0.989	.004	.003	3	5
KIDNEY	TRIM38 →	+1.051	+0.949	.001	.004	3	5
LUNG_NSCLC_LUSC	PPP1R3D →	+0.753	+1.565	<.001	<.001	3	5

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

RETREG2 by Negative regulation of amino acid transport activity — CNS

Explore this box plot interactively →