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 SOFT_TISSUE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HAPLN3, SUPV3L1, and MAN2B2, 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 scatter plot shows the strongest association, RNA methylation activity versus HAPLN3 in SOFT_TISSUE (Pearson r = 0.68).

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
SOFT_TISSUE	HAPLN3 →	+2.179	+0.286	.002	.001	3	6
SOFT_TISSUE	SUPV3L1 →	+0.680	+0.250	.002	.004	3	4
LIVER	MAN2B2 →	-1.185	-0.211	<.001	<.001	3	4
LUNG_SCLC	RHOQ →	+1.093	+0.133	.001	.006	3	4
LUNG_SCLC	RASGEF1B →	-2.292	-0.157	.001	<.001	3	4
LUNG_SCLC	PDSS2 →	-1.186	-0.227	.007	<.001	3	4

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

GO:0001510 vs HAPLN3 — SOFT_TISSUE

Explore this scatter interactively →