DNA topological change

Across TCGA pan-cancer cohorts, RNA activity of the DNA topological change pathway is associated with patient survival in 23 of 34 cancer lineages. Pathway activity is summarized from the expression of its 9 member genes.

The strongest signal is observed in kidney renal papillary cell carcinoma (KIRP), where higher DNA topological change pathway activity is associated with poorer overall survival. In most high-consensus cancer types, elevated pathway activity shows an unfavorable survival association, although some cancer types, such as PAAD and ESCA, show the opposite pattern, with higher activity associated with better survival.

KIRP, ACC, and KIRC are the cancer lineages in which this pathway most reproducibly stratifies patient survival.

Pathway-activity survival associations by lineage

Ranked by sampling consensus. AUC1 and AUC2 represent the survival AUCs for the high- and low-pathway-activity groups, respectively. The group with the lower AUC is interpreted as having poorer survival. The reported p-values are derived from the log-rank test.

Lineage	Measure	Split	Stage	AUC1 high	AUC2 low	p	Sampling consensus
KIRP	OS	Median	All	0.569	0.792	<.001	170	view →
ACC	OS	Tertile	All	0.407	0.868	<.001	136	view →
KIRC	OS	Median	All	0.546	0.707	<.001	131	view →
MESO	OS	Median	All	0.260	0.515	<.001	101	view →
KICH	DFS	Quartile	All	0.312	1.000	<.001	86	view →
LIHC	OS	Median	All	0.595	0.754	<.001	80	view →
THCA	DFS	Median	All	0.725	0.902	<.001	73	view →
UVM	DFS	Quartile	III,IV	0.216	0.848	.001	57	view →
UCEC	OS	Quartile	All	0.852	0.946	.002	50	view →
LGG	OS	Median	All	0.739	0.873	<.001	50	view →
CHOL	DFS	Tertile	All	0.109	0.615	<.001	30	view →
PRAD	DFS	Tertile	All	0.727	0.867	.003	18	view →

Pink = unfavorable, green = favorable. Showing the 12 strongest of 23 lineages.

GO:0006265–KIRP (OS)

Open the KIRP breakdown →