R-loop processing

Across TCGA patient cohorts, RNA activity of the R-loop processing pathway is significantly associated with the protein abundance of multiple proteins, with the BRCA cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are MTPAP, CDKN2AIP, and RPL3, 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 MTPAP in BRCA (Pearson r = -0.12).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
BRCA	MTPAP →	-0.319	-0.032	.004	.009	3	4
BRCA	CDKN2AIP →	+0.235	+0.031	.002	.002	3	4
BRCA	RPL3 →	-0.284	-0.034	.001	.001	3	4
BRCA	GAS7 →	+0.520	+0.049	<.001	<.001	3	4
LUAD	BAIAP2_S261 →	+0.559	+0.048	<.001	<.001	3	4
PDAC	JMJD6 →	+0.273	+0.036	<.001	.001	3	4

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

GO:0062176 vs MTPAP — BRCA

Explore this scatter interactively →