VPS54

Across TCGA patient cohorts, VPS54 mutation is significantly associated with the RNA expression of many other genes, with 4,113 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible VPS54-associated genes across cancer lineages are LIN7C, SLAMF9, and C18orf54. Each is linked with VPS54 in more than 2 cancer types. Because this analysis shows association rather than direction, both VPS54-to-partner and partner-to-VPS54 results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, LIN7C grouped by VPS54-low versus VPS54-high in SKCM.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (VPS54→partner) and Y-score (partner→VPS54) 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
SKCM	LIN7C →	+0.682	+3.359	.003	.004	3	3
UCEC	SLAMF9 →	+0.440	+2.152	<.001	.002	3	3
UCEC	C18orf54 →	+0.614	+1.836	<.001	.001	3	3
UCEC	STX8 →	+0.341	+1.595	.001	.003	3	3
UCEC	FAM76A →	+0.337	+2.343	.002	.003	3	3
UCEC	TAF13 →	+0.676	+3.098	<.001	<.001	3	3

Each partner links to its Q-omics profile. Showing the 6 strongest of 4,113 associations by consensus.

LIN7C by VPS54 expression — SKCM

Explore this box plot interactively →