PTEN

Across TCGA patient cohorts, PTEN mutation is significantly associated with the RNA expression of many other genes, with 11,736 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible PTEN-associated genes across cancer lineages are C4orf3, FAM162A, and TXNDC17. Each is linked with PTEN in more than 7 cancer types. Because this analysis shows association rather than direction, both PTEN-to-partner and partner-to-PTEN results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, C4orf3 grouped by PTEN-low versus PTEN-high in SKCM.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (PTEN→partner) and Y-score (partner→PTEN) 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	C4orf3 →	+0.414	+2.434	.005	.001	3	8
UCS	FAM162A →	+0.813	+3.078	.003	.007	3	7
LGG	TXNDC17 →	+0.524	+4.098	<.001	<.001	3	7
UCS	PGK1 →	+1.058	+3.321	<.001	.005	3	6
LGG	LDHA →	+1.234	+4.087	<.001	<.001	1	8
STAD	IRS2 →	-1.600	-3.459	<.001	.005	1	8

Each partner links to its Q-omics profile. Showing the 6 strongest of 11,736 associations by consensus.

C4orf3 by PTEN expression — SKCM

Explore this box plot interactively →