Negative regulation of lipoprotein particle clearance

Across TCGA cell cohorts, RNA activity of the Negative regulation of lipoprotein particle clearance pathway is significantly associated with the RNA expression of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PDIA3, SMG6, and RUNX2, each associated with the pathway in up to 7 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, Negative regulation of lipoprotein particle clearance activity versus PDIA3 in BONE (Pearson r = 0.73).

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
BONE	PDIA3 →	+1.020	+0.285	.002	.005	3	7
BLOOD_Lymphoma	SMG6 →	-1.278	-0.357	.004	<.001	3	6
BLOOD_Leukemia	RUNX2 →	+1.898	+0.233	<.001	<.001	3	6
URINARY_TRACT	SLC25A19 →	-0.873	-0.335	.007	<.001	3	6
BLOOD_Leukemia	INPP5A →	+0.813	+0.167	<.001	<.001	3	6
URINARY_TRACT	TIMM22 →	-0.808	-0.334	.003	.005	3	5

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

GO:0010985 vs PDIA3 — BONE

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