RNA methylation

Across TCGA cell cohorts, RNA activity of the RNA methylation pathway is significantly associated with the RNA expression of multiple genes, with the KIDNEY cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ZNF589, SMG7, and ARPP19, 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 box plot shows the strongest association, ZNF589 grouped by RNA methylation-low versus -high activity in KIDNEY.

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
KIDNEY	ZNF589 →	+1.255	+0.259	.002	.002	3	4
BLOOD_Leukemia	SMG7 →	-0.774	-0.189	.004	.001	3	4
BLOOD_Leukemia	ARPP19 →	-0.775	-0.195	.004	<.001	3	4
BLOOD_Leukemia	MSI2 →	-1.979	-0.153	.003	.009	3	4
SKIN	GGCX →	-0.616	-0.196	<.001	<.001	3	4
BLOOD_Leukemia	ZNF438 →	+2.003	+0.250	<.001	<.001	3	3

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

ZNF589 by RNA methylation activity — KIDNEY

Explore this box plot interactively →