R-loop processing

Across TCGA patient cohorts, RNA activity of the R-loop processing pathway is significantly associated with the RNA expression of multiple genes, with the KIRC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are GCNT7, TAS2R5, and JMJD7-PLA2G4B, each associated with the pathway in up to 29 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, R-loop processing activity versus GCNT7 in KIRC (Pearson r = 0.65).

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
KIRC	GCNT7 →	+0.371	+0.066	<.001	<.001	3	29
KIRP	TAS2R5 →	+1.110	+0.071	<.001	<.001	3	29
KIRC	JMJD7-PLA2G4B →	+0.953	+0.066	<.001	<.001	3	29
UVM	ZNF518A →	+1.231	+0.064	<.001	<.001	3	29
KIRP	RN7SL81P →	+0.889	+0.072	<.001	<.001	3	29
UVM	ANKRD12 →	+1.177	+0.062	<.001	<.001	3	28

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

GO:0062176 vs GCNT7 — KIRC

Explore this scatter interactively →