Amino-acid betaine metabolic process

Across TCGA cell cohorts, RNA activity of the Amino-acid betaine metabolic process pathway is significantly associated with the shRNA dependency of multiple genes, with the LIVER cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NPY2R, UBP1, and ATP7A, 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, NPY2R grouped by Amino-acid betaine metabolic process-low versus -high activity in LIVER.

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
LIVER	NPY2R →	-0.116	-0.413	.006	.008	2	6
BLOOD_Myeloma	UBP1 →	-0.403	-0.417	<.001	.002	3	4
BLOOD_Myeloma	ATP7A →	-0.223	-0.417	<.001	.002	3	4
LUNG_NSCLC_LUSC	ZNF658 →	+0.173	+0.354	.008	.003	3	4
SOFT_TISSUE	SERPIND1 →	-0.306	-0.303	.001	.008	3	4
OESOPHAGUS	HEXIM1 →	-0.238	-0.179	.001	.002	3	4

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

NPY2R by Amino-acid betaine metabolic process activity — LIVER

Explore this box plot interactively →