tRNA pseudouridine synthesis

Across TCGA cell cohorts, RNA activity of the tRNA pseudouridine synthesis 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 NPM3, TRAP1, and FBRSL1, each associated with the pathway in up to 9 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, tRNA pseudouridine synthesis activity versus NPM3 in LUNG_SCLC (Pearson r = 0.64).

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	NPM3 →	+1.419	+1.308	.001	<.001	3	9
BONE	TRAP1 →	+1.758	+1.662	.004	.002	2	8
BLOOD_Leukemia	FBRSL1 →	+0.749	+0.794	.003	.008	2	8
BLOOD_Lymphoma	DDX51 →	+0.776	+1.214	.001	<.001	3	6
BLOOD_Lymphoma	LAMP2 →	-0.888	-1.029	.006	.002	3	6
LARGE_INTESTINE	DOC2A →	+1.298	+0.874	.001	.001	3	6

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

GO:0031119 vs NPM3 — LUNG_SCLC

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