Pseudouridine synthesis

Across TCGA patient cohorts, RNA activity of the Pseudouridine synthesis pathway is significantly associated with the protein abundance of multiple proteins, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are NAF1, PARP1, and UBFD1, 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, Pseudouridine synthesis activity versus NAF1 in LSCC (Pearson r = 0.36).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
LSCC	NAF1 →	+0.361	+0.052	<.001	<.001	3	6
LSCC	PARP1 →	+0.338	+0.040	.002	.002	3	5
BRCA	UBFD1 →	+0.293	+0.038	<.001	<.001	2	5
LSCC	RERE_S642 →	+0.429	+0.043	.005	.002	3	4
LSCC	SFPQ →	+0.163	+0.052	.002	<.001	3	4
LUAD	TAF5L →	+0.154	+0.036	<.001	<.001	3	4

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

GO:0001522 vs NAF1 — LSCC

Explore this scatter interactively →