Regulation of low-density lipoprotein particle clearance

Across TCGA cell cohorts, RNA activity of the Regulation of low-density lipoprotein particle clearance 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 GNAS, ZNF33B, and HACE1, 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, GNAS grouped by Regulation of low-density lipoprotein particle clearance-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	GNAS →	+0.199	+0.088	.001	<.001	3	5
LUNG_NSCLC_LUAD	ZNF33B →	+0.152	+0.087	<.001	.002	3	4
URINARY_TRACT	HACE1 →	-0.197	-0.165	.007	.009	3	4
BONE	USP44 →	-0.289	-0.122	.002	.006	3	4
OESOPHAGUS	CRB3 →	-0.166	-0.222	<.001	.003	3	4
OESOPHAGUS	PMP2 →	-0.112	-0.125	.003	.003	3	4

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

GNAS by Regulation of low-density lipoprotein particle clearance activity — LARGE_INTESTINE

Explore this box plot interactively →