Negative regulation of double-strand break repair via nonhomologous end joining

Across TCGA cell cohorts, RNA activity of the Negative regulation of double-strand break repair via nonhomologous end joining pathway is significantly associated with the RNA expression of multiple genes, with the CNS cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HMGA2, LCA5, and TMEM183A, each associated with the pathway in up to 9 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 double-strand break repair via nonhomologous end joining activity versus HMGA2 in CNS (Pearson r = 0.51).

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
CNS	HMGA2 →	+2.864	+1.053	<.001	<.001	3	9
KIDNEY	LCA5 →	+0.794	+1.854	.001	<.001	3	4
LARGE_INTESTINE	TMEM183A →	-0.653	-0.721	.001	.007	3	4
LIVER	ST3GAL4 →	-1.176	-1.751	.005	<.001	3	4
CNS	EPHX1 →	-1.832	-0.805	<.001	.003	3	4
BONE	LGALSL →	-1.112	-1.446	<.001	<.001	3	3

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

GO:2001033 vs HMGA2 — CNS

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