Low-density lipoprotein particle clearance

Across TCGA patient cohorts, RNA activity of the Low-density lipoprotein particle clearance pathway is significantly associated with the RNA expression of multiple genes, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NCF2, TMBIM1, and PRICKLE1, 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 scatter plot shows the strongest association, Low-density lipoprotein particle clearance activity versus NCF2 in LSCC (Pearson r = -0.06).

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
LSCC	NCF2 →	+0.676	+0.151	<.001	.003	3	4
LSCC	TMBIM1 →	+0.593	+0.146	.002	.007	3	4
LSCC	PRICKLE1 →	+0.593	+0.146	<.001	.001	3	4
LSCC	DAB2 →	+0.705	+0.159	<.001	.001	3	4
BRCA	DDR2 →	+0.918	+0.209	<.001	<.001	3	4
LSCC	FOLR2 →	+1.076	+0.167	<.001	<.001	3	4

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

GO:0034383 vs NCF2 — LSCC

Explore this scatter interactively →