Purine nucleobase biosynthetic process

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

The most reproducible pathway-associated genes across cancer lineages are PGAM5, KLF16, and RAD51D, each associated with the pathway in up to 7 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, Purine nucleobase biosynthetic process activity versus PGAM5 in UPPER_AERODIGESTIVE_TRACT (Pearson r = 0.20).

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
UPPER_AERODIGESTIVE_TRACT	PGAM5 →	+0.889	+0.276	<.001	.003	2	7
BONE	KLF16 →	+0.984	+0.493	<.001	.005	3	6
BLOOD_Lymphoma	RAD51D →	+0.648	+0.143	.005	.001	3	6
BONE	DYSF →	-2.610	-0.456	.002	.003	3	6
CNS	PHACTR3 →	-0.115	-0.506	.004	.006	3	5
PANCREAS	ANKRD13B →	+1.962	+0.427	<.001	<.001	2	6

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

GO:0009113 vs PGAM5 — UPPER_AERODIGESTIVE_TRACT

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