Transcription-coupled nucleotide-excision repair

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

The most reproducible pathway-associated genes across cancer lineages are MBD1, TAOK1, and KCND3, each associated with the pathway in up to 5 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, MBD1 grouped by Transcription-coupled nucleotide-excision repair-low versus -high activity in BLOOD_Myeloma.

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
BLOOD_Myeloma	MBD1 →	+0.220	+0.076	<.001	.004	3	5
SOFT_TISSUE	TAOK1 →	-0.298	-0.099	.005	.001	3	5
LUNG_NSCLC_LUSC	KCND3 →	+0.157	+0.078	.001	.007	3	5
URINARY_TRACT	ABCE1 →	-0.521	-0.090	.005	<.001	3	4
LIVER	OR2T12 →	+0.184	+0.086	.002	.005	3	4
URINARY_TRACT	SLC25A36 →	+0.300	+0.092	.005	.006	3	4

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

MBD1 by Transcription-coupled nucleotide-excision repair activity — BLOOD_Myeloma

Explore this box plot interactively →