Low-density lipoprotein particle clearance

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

The most reproducible pathway-associated genes across cancer lineages are BPTF, AKR7A2P1, and ARHGAP31, 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, BPTF grouped by Low-density lipoprotein particle clearance-low versus -high activity in LUNG_NSCLC_LUAD.

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
LUNG_NSCLC_LUAD	BPTF →	-0.217	-0.093	.003	.003	3	5
LUNG_NSCLC_LUAD	AKR7A2P1 →	+0.145	+0.124	.004	<.001	3	5
LUNG_NSCLC_LUAD	ARHGAP31 →	-0.149	-0.110	.002	.003	3	5
UPPER_AERODIGESTIVE_TRACT	LIG4 →	-0.123	-0.202	.001	.002	3	4
BLOOD_Leukemia	PABPC5 →	+0.298	+0.117	.009	.006	3	4
BONE	EIF5A →	-0.314	-0.117	<.001	.007	3	4

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

BPTF by Low-density lipoprotein particle clearance activity — LUNG_NSCLC_LUAD

Explore this box plot interactively →