Ammonium homeostasis

Across TCGA cell cohorts, RNA activity of the Ammonium homeostasis pathway is significantly associated with the shRNA dependency 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 RTN4R, DENND4B, and CCL16, 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 box plot shows the strongest association, RTN4R grouped by Ammonium homeostasis-low versus -high activity in LARGE_INTESTINE.

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	RTN4R →	-0.238	-0.849	<.001	.003	3	4
SOFT_TISSUE	DENND4B →	+0.250	+2.174	.003	<.001	3	3
SOFT_TISSUE	CCL16 →	+0.251	+1.736	<.001	.004	3	3
SKIN	MTG2 →	-0.137	-1.108	.008	.003	3	3
LUNG_NSCLC_LUAD	PAMR1 →	-0.158	-0.615	.005	.008	2	4
UPPER_AERODIGESTIVE_TRACT	LGR6 →	-0.216	-0.204	.003	.004	3	3

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

RTN4R by Ammonium homeostasis activity — LARGE_INTESTINE

Explore this box plot interactively →