DNA modification

Across TCGA patient cohorts, RNA activity of the DNA modification pathway is significantly associated with the protein abundance of multiple proteins, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are BRD3, TOP2B, and WDR5, 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, DNA modification activity versus BRD3 in GBM (Pearson r = 0.01).

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
GBM	BRD3 →	+0.317	+0.035	<.001	<.001	3	7
GBM	TOP2B →	+0.341	+0.031	.009	.005	3	7
LSCC	WDR5 →	+0.210	+0.026	<.001	<.001	3	7
LSCC	ADNP →	+0.306	+0.028	<.001	<.001	3	7
LSCC	DHX9 →	+0.198	+0.035	.001	<.001	3	7
GBM	HNRNPR →	+0.293	+0.030	.001	.002	3	7

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

GO:0006304 vs BRD3 — GBM

Explore this scatter interactively →