Protein-DNA covalent cross-linking repair

Across TCGA cell cohorts, RNA activity of the Protein-DNA covalent cross-linking repair pathway is significantly associated with the RNA expression of multiple genes, with the BREAST cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VCP, PIGO, and OSTC, 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, Protein-DNA covalent cross-linking repair activity versus VCP in BREAST (Pearson r = 0.56).

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
BREAST	VCP →	+1.099	+0.154	<.001	.003	3	7
LUNG_NSCLC_LUAD	PIGO →	+0.789	+0.156	<.001	.001	3	5
LUNG_NSCLC_LUAD	OSTC →	+0.672	+0.138	.008	.001	3	5
BLOOD_Lymphoma	PXK →	-1.455	-0.169	.001	<.001	3	4
LIVER	SMAD9 →	+1.758	+0.241	<.001	.005	3	4
LIVER	DGKA →	-1.461	-0.182	.002	.005	3	4

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

GO:0106300 vs VCP — BREAST

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