TissGeneSummary for PTPN5 |
Gene summary |
Basic gene information | Gene symbol | PTPN5 |
Gene name | protein tyrosine phosphatase, non-receptor type 5 (striatum-enriched) | |
Synonyms | PTPSTEP|STEP | |
Cytomap | UCSC genome browser: 11p15.1 | |
Type of gene | protein-coding | |
RefGenes | NM_001039970.1, NM_001278236.1,NM_001278238.1,NM_001278239.1,NM_006906.1, NM_032781.3, | |
Description | neural-specific protein-tyrosine phosphataseprotein-tyrosine phosphatase striatum-enrichedstriatum-enriched protein-tyrosine phosphatasetyrosine-protein phosphatase non-receptor type 5 | |
Modification date | 20141207 | |
dbXrefs | MIM : 176879 | |
HGNC : HGNC | ||
Ensembl : ENSG00000110786 | ||
HPRD : 01472 | ||
Vega : OTTHUMG00000134304 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PTPN5 | |
BioGPS: 84867 | ||
Pathway | NCI Pathway Interaction Database: PTPN5 | |
KEGG: PTPN5 | ||
REACTOME: PTPN5 | ||
Pathway Commons: PTPN5 | ||
Context | iHOP: PTPN5 | |
ligand binding site mutation search in PubMed: PTPN5 | ||
UCL Cancer Institute: PTPN5 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,TiGER | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Brain | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGG | |
Reference showing the relevant tissue of PTPN5 | ||
Description by TissGene annotations | Cancer gene |
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
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TissGeneExp for PTPN5 |
Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
KICH | -2.604944868 | -0.709344868 | -1.8956 | 1.64E-06 | 5.99E-06 |
LUSC | -2.466796005 | 0.59336674 | -3.060162745 | 4.41E-17 | 3.55E-16 |
LUAD | -2.781195971 | 0.665264374 | -3.446460345 | 9.50E-24 | 3.33E-22 |
BRCA | -2.145133569 | -1.081423043 | -1.063710526 | 7.18E-11 | 2.86E-10 |
HNSC | -1.742366821 | -0.450804031 | -1.291562791 | 0.000137 | 0.000591651 |
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TissGene-miRNA for PTPN5 |
Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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TissGeneMut for PTPN5 |
TissGeneSNV for PTPN5 |
nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.V355M | SKCM | 2 |
p.R275C | COAD | 1 |
p.E194K | LUAD | 1 |
p.R182C | PRAD | 1 |
p.A116T | READ | 1 |
p.E556K | SKCM | 1 |
p.E333K | SKCM | 1 |
p.R182C | LIHC | 1 |
p.D209N | STAD | 1 |
p.A386V | PAAD | 1 |
p.D316E | LIHC | 1 |
p.R385H | COAD | 1 |
p.P183L | SKCM | 1 |
p.P145L | SKCM | 1 |
p.K329E | OV | 1 |
p.S337I | UCEC | 1 |
p.T133M | STAD | 1 |
p.P62S | BLCA | 1 |
p.G76C | HNSC | 1 |
p.Y265C | LAML | 1 |
p.S320F | SKCM | 1 |
p.E403* | LUAD | 1 |
p.E45K | PRAD | 1 |
p.L268P | SARC | 1 |
p.V387M | SKCM | 1 |
p.L34Q | OV | 1 |
p.T125M | COAD | 1 |
p.S521N | SKCM | 1 |
p.K293N | LUAD | 1 |
p.Q254K | LUAD | 1 |
p.T142N | LUAD | 1 |
p.E166K | SKCM | 1 |
p.G504S | UCEC | 1 |
p.Q498K | LUAD | 1 |
p.A116T | UCEC | 1 |
p.E198K | SKCM | 1 |
p.S66* | LUAD | 1 |
p.P169S | BRCA | 1 |
p.Y545X | THYM | 1 |
p.E371K | SKCM | 1 |
p.E524K | SKCM | 1 |
p.D402N | SKCM | 1 |
p.Y3C | COAD | 1 |
p.M552I | CESC | 1 |
p.S122C | OV | 1 |
p.Q49L | SKCM | 1 |
p.E41K | SKCM | 1 |
p.E4V | COAD | 1 |
p.C89* | LUAD | 1 |
p.V446G | SARC | 1 |
p.K325N | LUAD | 1 |
p.R150C | PRAD | 1 |
p.R338T | LUAD | 1 |
p.Q50R | UCEC | 1 |
p.T174N | LUAD | 1 |
p.D44E | LUAD | 1 |
p.R275C | UCEC | 1 |
p.E226K | LUAD | 1 |
p.P35L | SKCM | 1 |
p.E202K | UCEC | 1 |
p.R385H | STAD | 1 |
p.R306T | LUAD | 1 |
p.T392M | UCEC | 1 |
p.N357K | LUSC | 1 |
p.E288D | COAD | 1 |
p.T125M | STAD | 1 |
p.T133M | BRCA | 1 |
p.F304L | UCEC | 1 |
p.E276K | SKCM | 1 |
p.M552L | READ | 1 |
p.D434N | SKCM | 1 |
p.E383K | LUAD | 1 |
p.E55K | SKCM | 1 |
p.W388C | THYM | 1 |
p.R417* | STAD | 1 |
p.P177L | SKCM | 1 |
p.T432M | OV | 1 |
p.D345G | KICH | 1 |
p.S213F | SKCM | 1 |
p.A468S | LIHC | 1 |
p.E371* | LUAD | 1 |
p.G21E | LIHC | 1 |
p.E374K | SKCM | 1 |
p.R535K | SKCM | 1 |
p.S553N | SKCM | 1 |
p.A92T | PRAD | 1 |
p.R292Q | BLCA | 1 |
p.Q286K | LUAD | 1 |
p.L82I | STAD | 1 |
p.D348E | LIHC | 1 |
p.A418V | PAAD | 1 |
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TissGeneCNV for PTPN5 |
Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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TissGeneFusions for PTPN5 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
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TissGeneNet for PTPN5 |
Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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TissGeneProg for PTPN5 |
Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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TissGeneClin for PTPN5 |
TissGeneDrug for PTPN5 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for PTPN5 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0019693 | HIV Infections | 10 | BeFree |
umls:C0005586 | Bipolar Disorder | 3 | BeFree |
umls:C0036341 | Schizophrenia | 2 | BeFree |
umls:C0007621 | Neoplastic Cell Transformation | 1 | GAD |
umls:C0007787 | Transient Ischemic Attack | 1 | RGD |
umls:C0009404 | Colorectal Neoplasms | 1 | GAD |
umls:C0022660 | Kidney Failure, Acute | 1 | BeFree |
umls:C0027746 | Nerve Degeneration | 1 | CTD_human |
umls:C0027819 | Neuroblastoma | 1 | BeFree |
umls:C0029925 | Ovarian Carcinoma | 1 | BeFree |
umls:C0036220 | Kaposi Sarcoma | 1 | BeFree |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
umls:C0041696 | Unipolar Depression | 1 | BeFree |
umls:C0338831 | Manic | 1 | BeFree |
umls:C0700095 | Central neuroblastoma | 1 | BeFree |
umls:C0752308 | Hypoxia-Ischemia, Brain | 1 | RGD |
umls:C0920269 | Microsatellite Instability | 1 | GAD |
umls:C1140680 | Malignant neoplasm of ovary | 1 | BeFree |
umls:C1269683 | Major Depressive Disorder | 1 | BeFree |