Maintenance of DNA repeat elements

Across TCGA cell cohorts, RNA activity of the Maintenance of DNA repeat elements pathway is significantly associated with the shRNA dependency of multiple genes, with the LUNG_NSCLC_LUAD cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are IPO4, RAE1, and VNN1, each associated with the pathway in up to 2 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, IPO4 grouped by Maintenance of DNA repeat elements-low versus -high activity in LUNG_NSCLC_LUAD.

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
LUNG_NSCLC_LUAD	IPO4 →	-0.424	-1.537	.002	<.001	3	2
LARGE_INTESTINE	RAE1 →	+0.344	+1.587	.002	<.001	3	2
LARGE_INTESTINE	VNN1 →	+0.207	+1.587	.004	<.001	3	2
LUNG_NSCLC_LUAD	KRT12 →	-0.053	-1.530	.007	.003	3	1
LUNG_NSCLC_LUAD	NUTM2B →	-0.190	-1.537	.002	<.001	3	1
LUNG_NSCLC_LUAD	ZNF550 →	-0.156	-1.530	.004	.003	3	1

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

IPO4 by Maintenance of DNA repeat elements activity — LUNG_NSCLC_LUAD

Explore this box plot interactively →