'de novo' pyrimidine nucleobase biosynthetic process

Across TCGA cell cohorts, RNA activity of the 'de novo' pyrimidine nucleobase biosynthetic process pathway is significantly associated with the RNA expression of multiple genes, with the LARGE_INTESTINE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are FAM120C, SOS1, and ZKSCAN2, 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 box plot shows the strongest association, FAM120C grouped by 'de novo' pyrimidine nucleobase biosynthetic process-low versus -high activity in LARGE_INTESTINE.

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
LARGE_INTESTINE	FAM120C →	-0.807	-0.219	.001	.001	3	6
OESOPHAGUS	SOS1 →	-0.662	-0.242	.007	.003	3	4
LUNG_NSCLC_LUAD	ZKSCAN2 →	-0.450	-0.302	.009	<.001	3	4
OESOPHAGUS	TRAPPC10 →	-0.666	-0.305	.006	.004	3	4
OESOPHAGUS	ANTXR1 →	-1.861	-0.289	.008	.004	3	4
BLOOD_Lymphoma	TMEM67 →	-1.695	-0.416	.002	<.001	3	4

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

FAM120C by 'de novo' pyrimidine nucleobase biosynthetic process activity — LARGE_INTESTINE

Explore this box plot interactively →