Transcription-coupled nucleotide-excision repair

Across TCGA cell cohorts, RNA activity of the Transcription-coupled nucleotide-excision repair pathway is significantly associated with the RNA expression of multiple genes, with the URINARY_TRACT cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ZC3HAV1L, TMEM262, and LPAR2, each associated with the pathway in up to 4 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, ZC3HAV1L grouped by Transcription-coupled nucleotide-excision repair-low versus -high activity in URINARY_TRACT.

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
URINARY_TRACT	ZC3HAV1L →	-1.851	-0.268	.001	.005	3	3
URINARY_TRACT	TMEM262 →	+0.396	+0.268	<.001	.005	3	3
URINARY_TRACT	LPAR2 →	+2.053	+0.465	<.001	.007	3	3
BONE	WFDC2 →	+0.893	+0.114	.003	.005	3	3
LUNG_NSCLC_LUAD	ARFIP2 →	-0.352	-0.077	.009	.003	3	3
LUNG_NSCLC_LUAD	ZNF704 →	-1.405	-0.092	<.001	<.001	3	3

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

ZC3HAV1L by Transcription-coupled nucleotide-excision repair activity — URINARY_TRACT

Explore this box plot interactively →