Positive regulation of apoptotic cell clearance

Across TCGA patient cohorts, RNA activity of the Positive regulation of apoptotic cell clearance pathway is significantly associated with the RNA expression of multiple genes, with the PDAC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VGLL3, EDA2R, and JAM3, each associated with the pathway in up to 8 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, Positive regulation of apoptotic cell clearance activity versus VGLL3 in PDAC (Pearson r = 0.42).

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
PDAC	VGLL3 →	+0.795	+0.180	<.001	<.001	3	8
LSCC	EDA2R →	+0.489	+0.112	<.001	<.001	3	7
OV	JAM3 →	+0.627	+0.107	<.001	<.001	3	7
OV	MSRB3 →	+0.750	+0.130	.006	<.001	3	7
GBM	COLEC12 →	+0.838	+0.110	.002	.003	3	7
OV	TPM2 →	+0.947	+0.113	<.001	<.001	3	7

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

GO:2000427 vs VGLL3 — PDAC

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