Choline metabolic process

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

The most reproducible pathway-associated genes across cancer lineages are ZFHX4, DDX50, and RAMP2, 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, ZFHX4 grouped by Choline metabolic process-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	ZFHX4 →	-0.130	-0.147	.008	.001	3	6
KIDNEY	DDX50 →	-0.156	-0.130	<.001	.004	3	3
KIDNEY	RAMP2 →	+0.413	+0.220	.004	.002	3	3
KIDNEY	ZNF623 →	+0.205	+0.182	.006	.009	3	3
KIDNEY	SNRNP40 →	-0.268	-0.173	<.001	<.001	3	3
BLOOD_Lymphoma	ROPN1 →	-0.169	-1.695	.006	.004	3	3

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

ZFHX4 by Choline metabolic process activity — BREAST

Explore this box plot interactively →