Double-strand break repair via nonhomologous end joining

Across TCGA cell cohorts, RNA activity of the Double-strand break repair via nonhomologous end joining pathway is significantly associated with the shRNA dependency of multiple genes, with the BLOOD_Leukemia cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NAGK, GTPBP3, and SLC39A14, 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, NAGK grouped by Double-strand break repair via nonhomologous end joining-low versus -high activity in BLOOD_Leukemia.

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_Leukemia	NAGK →	+0.187	+0.159	.007	.003	3	4
PANCREAS	GTPBP3 →	+0.288	+0.219	<.001	<.001	3	4
PANCREAS	SLC39A14 →	+0.515	+0.226	.001	<.001	3	4
PANCREAS	SDK1 →	-0.112	-0.133	<.001	.001	3	4
PANCREAS	COL4A3 →	+0.097	+0.259	.002	<.001	3	4
STOMACH	NFATC2 →	-0.098	-0.181	.001	.004	2	5

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

NAGK by Double-strand break repair via nonhomologous end joining activity — BLOOD_Leukemia

Explore this box plot interactively →