SMARCAL1

Across TCGA cell cohorts, SMARCAL1 mutation is significantly associated with the RNA expression of many other genes, with 18 significant associations in total. LARGE_INTESTINE shows the largest number of these associations.

The most reproducible SMARCAL1-associated genes across cancer lineages are TBL1Y, FGF3, and LIM2. Each is linked with SMARCAL1 in more than 1 cancer types. Because this analysis shows association rather than direction, both SMARCAL1-to-partner and partner-to-SMARCAL1 results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, TBL1Y grouped by SMARCAL1-low versus SMARCAL1-high in LUNG_NSCLC_LUSC.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (SMARCAL1→partner) and Y-score (partner→SMARCAL1) 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
LUNG_NSCLC_LUSC	TBL1Y →	+0.053	+4.643	<.001	.008	3	1
CNS	FGF3 →	+0.053	+4.981	<.001	.008	3	1
BREAST	LIM2 →	+0.031	+3.378	<.001	.006	3	1
BREAST	TFDP3 →	+0.217	+3.544	<.001	.006	3	1
LARGE_INTESTINE	RFPL3 →	+0.037	+2.925	<.001	.007	3	1
LARGE_INTESTINE	COX6A2 →	+0.058	+3.700	<.001	.009	3	1

Each partner links to its Q-omics profile. Showing the 6 strongest of 18 associations by consensus.

TBL1Y by SMARCAL1 expression — LUNG_NSCLC_LUSC

Explore this box plot interactively →