Demethylation

Across TCGA cell cohorts, RNA activity of the Demethylation pathway is significantly associated with the RNA expression of multiple genes, with the KIDNEY cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are TOPORS, TLE3, and XAB2, each associated with the pathway in up to 4 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, TOPORS grouped by Demethylation-low versus -high activity in KIDNEY.

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
KIDNEY	TOPORS →	-0.667	-1.106	.005	.007	3	4
BREAST	TLE3 →	-1.451	-1.244	.001	<.001	3	4
OVARY	XAB2 →	-0.410	-1.146	.006	<.001	3	4
LUNG_SCLC	NODAL →	-0.480	-1.193	<.001	.002	3	4
CNS	PKN3 →	-1.067	-0.794	.004	.009	3	4
CNS	TET3 →	-0.501	-0.784	<.001	.001	3	4

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

TOPORS by Demethylation activity — KIDNEY

Explore this box plot interactively →