S-adenosylmethionine cycle

Across TCGA cell cohorts, RNA activity of the S-adenosylmethionine cycle pathway is significantly associated with the RNA expression of multiple genes, with the CNS cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PTPN12, UQCC3, and THAP9, each associated with the pathway in up to 5 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, S-adenosylmethionine cycle activity versus PTPN12 in CNS (Pearson r = -0.52).

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
CNS	PTPN12 →	-0.969	-0.726	.005	.004	3	5
LUNG_NSCLC_LUSC	UQCC3 →	+1.284	+0.236	.008	.006	3	5
BLOOD_Lymphoma	THAP9 →	+0.793	+0.207	.007	.009	3	5
BLOOD_Lymphoma	DCAF12 →	+1.023	+0.224	.002	.004	3	5
SKIN	ACTN1 →	-0.758	-0.276	.003	<.001	3	5
CNS	GALNT4 →	-0.719	-0.735	<.001	.008	3	4

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

GO:0033353 vs PTPN12 — CNS

Explore this scatter interactively →