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 COAD cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are FGF1, GRP, and FBXL5, 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 scatter plot shows the strongest association, R-loop processing activity versus FGF1 in COAD (Pearson r = -0.17).

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
COAD	FGF1 →	-0.482	-0.138	.004	.001	3	4
LUAD	GRP →	-0.811	-0.241	<.001	<.001	3	4
BRCA	FBXL5 →	-0.708	-0.274	<.001	.001	3	3
CCRCC	AKAP12 →	-0.663	-0.621	.005	.003	3	3
BRCA	UBE2SP2 →	+0.891	+0.231	.001	<.001	3	3
BRCA	SPTLC2 →	-0.538	-0.231	.001	.008	3	3

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

GO:0062176 vs FGF1 — COAD

Explore this scatter interactively →