Negative regulation of low-density lipoprotein particle clearance

Across TCGA cell cohorts, RNA activity of the Negative regulation of low-density lipoprotein particle clearance pathway is significantly associated with the RNA expression of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are GEMIN4, DNAJA3, and IKBKE, 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 scatter plot shows the strongest association, Negative regulation of low-density lipoprotein particle clearance activity versus GEMIN4 in BONE (Pearson r = -0.66).

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
BONE	GEMIN4 →	-1.212	-0.204	.006	.009	3	6
BREAST	DNAJA3 →	-0.543	-0.173	<.001	<.001	3	6
BLOOD_Lymphoma	IKBKE →	+1.309	+0.315	<.001	<.001	3	4
LUNG_NSCLC_LUAD	KIF23 →	+0.543	+0.160	.001	.004	3	4
SOFT_TISSUE	ACE2 →	+0.057	+0.232	.003	.001	3	4
SOFT_TISSUE	IMP4 →	-0.605	-0.218	.007	.004	3	4

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

GO:0010989 vs GEMIN4 — BONE

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