VPS39

Across TCGA cell cohorts, VPS39 mutation is significantly associated with the RNA expression of many other genes, with 7 significant associations in total. LARGE_INTESTINE shows the largest number of these associations.

The most reproducible VPS39-associated genes across cancer lineages are CLRN1, MAGEB4, and CPLX4. Each is linked with VPS39 in more than 1 cancer types. Because this analysis shows association rather than direction, both VPS39-to-partner and partner-to-VPS39 results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, CLRN1 grouped by VPS39-low versus VPS39-high in LUNG_NSCLC_LUAD.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (VPS39→partner) and Y-score (partner→VPS39) 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_LUAD	CLRN1 →	+0.033	+6.266	<.001	<.001	3	1
LARGE_INTESTINE	MAGEB4 →	+0.012	+3.678	<.001	.001	3	1
LARGE_INTESTINE	CPLX4 →	+0.030	+3.222	<.001	.002	3	1
BLOOD_Lymphoma	AVP →	+0.031	+5.209	<.001	.005	3	1
BLOOD_Lymphoma	IL36B →	+0.021	+5.209	.001	.005	3	1
BLOOD_Lymphoma	KRTAP4-1 →	+0.151	+4.867	<.001	.009	3	1

Each partner links to its Q-omics profile. Showing the 6 strongest of 7 associations by consensus.

CLRN1 by VPS39 expression — LUNG_NSCLC_LUAD

Explore this box plot interactively →