SMCHD1

Across TCGA patient cohorts, SMCHD1 mutation is significantly associated with the RNA expression of many other genes, with 6,612 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible SMCHD1-associated genes across cancer lineages are GPATCH3, TOMM22, and LMF2. Each is linked with SMCHD1 in more than 4 cancer types. Because this analysis shows association rather than direction, both SMCHD1-to-partner and partner-to-SMCHD1 results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, GPATCH3 grouped by SMCHD1-low versus SMCHD1-high in UCEC.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (SMCHD1→partner) and Y-score (partner→SMCHD1) 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	GPATCH3 →	+0.357	+2.089	<.001	<.001	3	5
UCEC	TOMM22 →	+0.403	+2.447	<.001	<.001	3	3
UCEC	LMF2 →	+0.505	+2.426	<.001	<.001	3	3
BLCA	MCM5 →	+0.583	+2.233	.002	.005	3	3
BLCA	NUDT1 →	+0.542	+3.470	.001	.002	3	3
BLCA	FAAP24 →	+0.518	+3.481	<.001	.002	3	3

Each partner links to its Q-omics profile. Showing the 6 strongest of 6,612 associations by consensus.

GPATCH3 by SMCHD1 expression — UCEC

Explore this box plot interactively →