mRNA pseudouridine synthesis

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

The most reproducible pathway-associated genes across cancer lineages are ST20, DKC1, and NDFIP1, 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, ST20 grouped by mRNA pseudouridine synthesis-low versus -high activity in BONE.

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
BONE	ST20 →	+1.107	+0.360	.001	<.001	3	4
BONE	DKC1 →	-1.323	-0.445	.002	.003	3	3
BONE	NDFIP1 →	+1.217	+0.374	.007	.001	3	3
BONE	CYB5D2 →	+1.613	+0.433	.003	<.001	3	3
OESOPHAGUS	SLC9A6 →	-0.819	-0.326	.006	.007	3	3
BREAST	TUBD1 →	+0.750	+0.758	.008	<.001	3	3

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

ST20 by mRNA pseudouridine synthesis activity — BONE

Explore this box plot interactively →