Apoptotic cell clearance

Across TCGA cell cohorts, RNA activity of the Apoptotic cell clearance pathway is significantly associated with the shRNA dependency of multiple genes, with the OVARY cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ITGAV, RAC1, and ITGB5, each associated with the pathway in up to 9 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, ITGAV grouped by Apoptotic cell clearance-low versus -high activity in OVARY.

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
OVARY	ITGAV →	-0.655	-1.274	<.001	<.001	3	9
LUNG_NSCLC_LUAD	RAC1 →	-0.285	-0.487	<.001	.001	3	8
BREAST	ITGB5 →	-0.254	-0.529	.001	.009	3	6
CNS	MDM2 →	+0.277	+0.932	<.001	<.001	3	5
BLOOD_Myeloma	ANPEP →	-0.405	-1.670	.005	<.001	2	5
LUNG_NSCLC_LUAD	RAPGEF1 →	-0.274	-0.582	<.001	.003	3	4

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

ITGAV by Apoptotic cell clearance activity — OVARY

Explore this box plot interactively →