MSH2

Across TCGA patient cohorts, MSH2 mutation is significantly associated with the RNA expression of many other genes, with 2,397 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible MSH2-associated genes across cancer lineages are GTF2A2, NCAPD3, and PKN3. Each is linked with MSH2 in more than 2 cancer types. Because this analysis shows association rather than direction, both MSH2-to-partner and partner-to-MSH2 results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, GTF2A2 grouped by MSH2-low versus MSH2-high in UCEC.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (MSH2→partner) and Y-score (partner→MSH2) are standardized regression coefficients; both directions are reported because the association is undirected. p-values are from the association test.

Lineage	Partner gene	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
UCEC	GTF2A2 →	+0.378	+2.024	.003	.001	3	3
UCEC	NCAPD3 →	+0.493	+2.078	.001	<.001	3	3
UCEC	PKN3 →	+0.683	+2.180	<.001	<.001	3	3
UCEC	ZNF367 →	+0.606	+1.928	<.001	.008	3	3
UCEC	NIPA1 →	+0.683	+2.392	<.001	<.001	3	3
READ	OR12D1 →	+0.108	+6.257	<.001	.001	3	2

Each partner links to its Q-omics profile. Showing the 6 strongest of 2,397 associations by consensus.

GTF2A2 by MSH2 expression — UCEC

Explore this box plot interactively →