R-loop processing

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

The most reproducible pathway-associated genes across cancer lineages are AZIN1, ZKSCAN1, and ZMYM2, each associated with the pathway in up to 6 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, AZIN1 grouped by R-loop processing-low versus -high activity in LUNG_SCLC.

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
LUNG_SCLC	AZIN1 →	-0.952	-0.344	.003	.005	3	6
LUNG_SCLC	ZKSCAN1 →	-1.278	-0.401	<.001	.001	3	5
LUNG_NSCLC_LUSC	ZMYM2 →	-1.000	-0.304	.007	.009	3	4
LUNG_NSCLC_LUSC	MDM4 →	-1.328	-0.308	.002	.008	3	4
LUNG_SCLC	RAMP2 →	-2.403	-0.340	.001	.006	3	4
SKIN	SPPL2B →	-0.542	-0.176	<.001	.001	3	4

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

AZIN1 by R-loop processing activity — LUNG_SCLC

Explore this box plot interactively →