High-density lipoprotein particle remodeling

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

The most reproducible pathway-associated genes across cancer lineages are MAX, CMTR1, and FERD3L, 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, MAX grouped by High-density lipoprotein particle remodeling-low versus -high activity in LUNG_NSCLC_LUSC.

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_LUSC	MAX →	+0.385	+0.102	.001	.006	3	5
SKIN	CMTR1 →	-0.142	-0.195	.007	.002	2	5
BLOOD_Myeloma	FERD3L →	+0.325	+0.096	.007	.002	3	4
BLOOD_Leukemia	ATG12 →	+0.221	+0.169	.002	.007	3	4
LIVER	MCM2 →	-0.331	-0.488	.002	.001	3	4
KIDNEY	CACNA1A →	+0.107	+0.075	<.001	<.001	3	4

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

MAX by High-density lipoprotein particle remodeling activity — LUNG_NSCLC_LUSC

Explore this box plot interactively →