Formation of extrachromosomal circular DNA

Across TCGA cell cohorts, RNA activity of the Formation of extrachromosomal circular DNA pathway is significantly associated with the RNA expression of multiple genes, with the LARGE_INTESTINE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NSUN4, CPT2, and RNF227, 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, NSUN4 grouped by Formation of extrachromosomal circular DNA-low versus -high activity in LARGE_INTESTINE.

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
LARGE_INTESTINE	NSUN4 →	+0.741	+0.541	<.001	<.001	3	4
LARGE_INTESTINE	CPT2 →	+0.857	+0.687	.001	.003	3	4
BLOOD_Myeloma	RNF227 →	+0.794	+1.644	.003	.008	3	3
OESOPHAGUS	RNF26 →	-0.718	-0.744	.003	.004	3	3
STOMACH	E4F1 →	-0.615	-1.447	.008	.001	3	3
LARGE_INTESTINE	RIC8B →	+0.560	+0.404	.009	.002	3	3

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

NSUN4 by Formation of extrachromosomal circular DNA activity — LARGE_INTESTINE

Explore this box plot interactively →