PTPN4

Across TCGA patient cohorts, PTPN4 mutation is significantly associated with the RNA expression of many other genes, with 3,070 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible PTPN4-associated genes across cancer lineages are LINC01925, SVIP, and PSMD7. Each is linked with PTPN4 in more than 2 cancer types. Because this analysis shows association rather than direction, both PTPN4-to-partner and partner-to-PTPN4 results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, LINC01925 grouped by PTPN4-low versus PTPN4-high in READ.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (PTPN4→partner) and Y-score (partner→PTPN4) 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
READ	LINC01925 →	+0.063	+4.341	<.001	.007	3	3
BLCA	SVIP →	+1.012	+3.343	.001	.005	3	3
UCEC	PSMD7 →	+0.447	+2.686	<.001	<.001	3	3
UCEC	KIF18A →	+0.474	+1.541	.004	.002	3	3
UCEC	THAP11 →	+0.394	+1.797	<.001	<.001	3	3
UCEC	TMEM38B →	+0.636	+1.765	<.001	<.001	3	3

Each partner links to its Q-omics profile. Showing the 6 strongest of 3,070 associations by consensus.

LINC01925 by PTPN4 expression — READ

Explore this box plot interactively →