SMCHD1

Across TCGA cell cohorts, SMCHD1 mutation is significantly associated with the RNA expression of many other genes, with 147 significant associations in total. LARGE_INTESTINE shows the largest number of these associations.

The most reproducible SMCHD1-associated genes across cancer lineages are KCNK16, GP9, and NPY5R. Each is linked with SMCHD1 in more than 1 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, KCNK16 grouped by SMCHD1-low versus SMCHD1-high in UPPER_AERODIGESTIVE_TRACT.

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
UPPER_AERODIGESTIVE_TRACT	KCNK16 →	+0.027	+4.736	.009	.009	3	2
BONE	GP9 →	+0.049	+5.169	<.001	.004	3	1
BLOOD_Myeloma	NPY5R →	+0.023	+4.807	<.001	.006	3	1
BLOOD_Myeloma	OR6C70 →	+0.073	+4.807	<.001	.006	3	1
BLOOD_Myeloma	SALL3 →	+0.060	+4.807	<.001	.006	3	1
STOMACH	SSX7 →	+0.433	+5.285	<.001	.003	3	1

Each partner links to its Q-omics profile. Showing the 6 strongest of 147 associations by consensus.

KCNK16 by SMCHD1 expression — UPPER_AERODIGESTIVE_TRACT

Explore this box plot interactively →