DNA modification

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

The most reproducible pathway-associated genes across cancer lineages are IRAG1, PIF1, and LYVE1, 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, DNA modification activity versus IRAG1 in GBM (Pearson r = -0.34).

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
GBM	IRAG1 →	-1.303	-2.147	<.001	<.001	3	5
BRCA	PIF1 →	+0.695	+0.815	<.001	.003	3	4
LUAD	LYVE1 →	-1.253	-1.370	.002	.001	3	4
OV	LAMA4-AS1 →	-0.103	-0.689	.004	.001	3	4
LUAD	DENND3 →	-0.567	-1.055	.007	.007	3	4
BRCA	CNRIP1 →	-1.009	-1.275	<.001	<.001	3	4

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

GO:0006304 vs IRAG1 — GBM

Explore this scatter interactively →