'de novo' pyrimidine nucleobase biosynthetic process

Across TCGA patient cohorts, RNA activity of the 'de novo' pyrimidine nucleobase biosynthetic process 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 TRAP1, AFAP1L2, and PNPT1, each associated with the pathway in up to 8 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, 'de novo' pyrimidine nucleobase biosynthetic process activity versus TRAP1 in LSCC (Pearson r = 0.50).

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	TRAP1 →	+0.391	+0.080	<.001	<.001	3	8
LUAD	AFAP1L2 →	-0.527	-0.075	<.001	<.001	3	8
LSCC	PNPT1 →	+0.406	+0.081	<.001	<.001	3	8
LSCC	SH3D19 →	-0.424	-0.104	<.001	<.001	3	8
LSCC	TOMM70 →	+0.348	+0.097	<.001	<.001	3	8
BRCA	ESF1 →	+0.458	+0.067	<.001	<.001	3	8

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

GO:0006207 vs TRAP1 — LSCC

Explore this scatter interactively →