Basic information

Full name
phosphatase and tensin homolog
Ensembl
ENSG00000171862.11
Summary
This gene was identified as a tumor suppressor that is mutated in a large number of cancers at high frequency. The protein encoded by this gene is a phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase. It contains a tensin like domain as well as a catalytic domain similar to that of the dual specificity protein tyrosine phosphatases. Unlike most of the protein tyrosine phosphatases, this protein preferentially dephosphorylates phosphoinositide substrates. It negatively regulates intracellular levels of phosphatidylinositol-3,4,5-trisphosphate in cells and functions as a tumor suppressor by negatively regulating AKT/PKB signaling pathway. The use of a non-canonical (CUG) upstream initiation site produces a longer isoform that initiates translation with a leucine, and is thought to be preferentially associated with the mitochondrial inner membrane. This longer isoform may help regulate energy metabolism in the mitochondria. A pseudogene of this gene is found on chromosome 9. Alternative splicing and the use of multiple translation start codons results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Feb 2015]
Annotation
Cancer driver (TSG) Phosphatase

Protein product

Phosphosites on the primary protein product
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Tumor and normal comparison

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Signed p-values
Data type
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
RNA-3.7e-10-0.004--0.065-4.8e-15-2e-23--0.36-
protein-5.2e-17--1.3e-19-3.2e-5-0.027-4.8e-16-4.5e-6-0.863.8e-9-1.1e-8

* P-values are from Wilcoxon rank sum test and can be clicked to show the box plots. Positive values mean higher abundance in tumor. BRCA and GBM do not have normal samples.

mRNA expression at gene level
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC99.51010.51111.51212.51313.51414.515log2(RSEM+1)tumornormal
Protein expression
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC2020.52121.52222.52323.52424.525log2(MS1 intensity)tumornormal

* Mild outlier: filled circle; Extreme outlier: empty circle.

Phenotype and mutation association

Manhattan plot summarizing associations of phenotypes and mutations across all cohorts and omics data types

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC0123456789101112130-1-2-3-4-5-6-7-8-9-10-11-12-13Pan-cancer024681012141618202224260-2-4-6-8-10-12-14-16-18-20-22-24-26proteinRNASCNVclinicalpathwaycell typegenomicmutation-log10 of P-value

* Data points of significant associations above and below the dotted lines can be hovered to show the phenotype.

Associations of the protein abundance of PTEN with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
xcell: stroma score3.1e-250.0111.8e-50.20.50.0551e-91.1e-51.3e-32.1e-53.6e-5
ESTIMATE: StromalScore1.1e-227.7e-40.0020.0060.926.8e-32.5e-95.4e-30.035.3e-31.3e-7
xcell: Cancer associated fibroblast3.2e-217.3e-30.0220.320.490.0295.3e-84.8e-65.9e-41.9e-41.1e-4
xcell: Hematopoietic stem cell8.9e-192.8e-31.1e-60.440.850.574.6e-74.9e-60.0340.0322.3e-6
HALLMARK_UV_RESPONSE_DN3.6e-176.8e-54.3e-30.11-0.290.0262.5e-105.6e-50.0990.316.6e-5
PROGENy: TGFb3.2e-151.4e-31.5e-30.37-0.30.0175.5e-80.210.0321.4e-42.3e-4
HALLMARK_MYOGENESIS2.8e-145.4e-39.6e-30.72-0.570.727.0e-55.5e-66.8e-33.2e-31.3e-5
HALLMARK_KRAS_SIGNALING_UP4.5e-140.0720.0914.2e-3-0.980.0125e-71.1e-30.190.0466.3e-4
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION2.4e-131.2e-30.20.054-0.0540.0416.5e-60.10.0129.9e-44.1e-6
ESTIMATE: ESTIMATEScore3.2e-130.120.191.7e-3-0.993.7e-32e-70.010.130.251.7e-4
Showing 1 to 10 of 256 rows

* P-values could be from test for Spearman correlation, Wilcoxon rank sum test, Jonckheere-Terpstra trend test or Cox regression depending on the data type. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Cis-association

Associations between omics data of PTEN

BRCA0.600.170.31proteinmRNASCNVmethylationCCRCC0.410.140.150.070.210.09proteinmRNASCNVmethylationCOAD0.340.160.35proteinmRNASCNVmethylationGBM0.35-0.070.27-0.250.56-0.17proteinmRNASCNVmethylationHNSCC0.60-0.070.290.110.550.04proteinmRNASCNVmethylationLSCC0.750.030.560.110.640.16proteinmRNASCNVmethylationLUAD0.560.010.21-0.100.44-0.00proteinmRNASCNVmethylationOV0.470.380.57proteinmRNASCNVmethylationPDAC0.490.050.080.080.040.18proteinmRNASCNVmethylationUCEC0.540.130.180.100.390.21proteinmRNASCNVmethylation

* The numbers are Spearman correlation coefficients and can be clicked to show the scatter plots. The color and size of the circles correlate with the coefficients.

Trans-association

Associations of the protein abundance of PTEN and the protein abundance of other genes

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Signed p-values
Gene
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
No matching records found

* P-values are from test for Spearman correlation. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Gene set enrichment analysis

Submit genes and the common logarithm of the p-values of their association with to WebGestalt.