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Gene: PTPN2 |
Gene summary for PTPN2 |
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Gene information | Species | Human | Gene symbol | PTPN2 | Gene ID | 5771 |
Gene name | protein tyrosine phosphatase non-receptor type 2 | |
Gene Alias | PTN2 | |
Cytomap | 18p11.21 | |
Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | P17706 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5771 | PTPN2 | CA_HPV_1 | Human | Cervix | CC | 3.73e-02 | 1.63e-01 | 0.0264 |
5771 | PTPN2 | CCI_1 | Human | Cervix | CC | 9.44e-03 | 6.25e-01 | 0.528 |
5771 | PTPN2 | CCI_3 | Human | Cervix | CC | 1.55e-02 | 5.66e-01 | 0.516 |
5771 | PTPN2 | LZE2D | Human | Esophagus | HGIN | 1.02e-02 | 2.93e-01 | 0.0642 |
5771 | PTPN2 | LZE3D | Human | Esophagus | HGIN | 1.23e-02 | 8.78e-01 | 0.0668 |
5771 | PTPN2 | LZE4T | Human | Esophagus | ESCC | 1.79e-11 | 3.85e-01 | 0.0811 |
5771 | PTPN2 | LZE5T | Human | Esophagus | ESCC | 2.36e-02 | 4.60e-01 | 0.0514 |
5771 | PTPN2 | LZE7T | Human | Esophagus | ESCC | 1.70e-08 | 7.10e-01 | 0.0667 |
5771 | PTPN2 | LZE8T | Human | Esophagus | ESCC | 1.57e-08 | 3.58e-01 | 0.067 |
5771 | PTPN2 | LZE20T | Human | Esophagus | ESCC | 9.63e-08 | 2.16e-01 | 0.0662 |
5771 | PTPN2 | LZE22D1 | Human | Esophagus | HGIN | 1.37e-02 | 1.68e-01 | 0.0595 |
5771 | PTPN2 | LZE22T | Human | Esophagus | ESCC | 1.76e-03 | 7.01e-01 | 0.068 |
5771 | PTPN2 | LZE24T | Human | Esophagus | ESCC | 3.56e-24 | 8.39e-01 | 0.0596 |
5771 | PTPN2 | LZE21T | Human | Esophagus | ESCC | 1.18e-09 | 7.07e-01 | 0.0655 |
5771 | PTPN2 | P1T-E | Human | Esophagus | ESCC | 8.38e-08 | 7.06e-01 | 0.0875 |
5771 | PTPN2 | P2T-E | Human | Esophagus | ESCC | 7.05e-45 | 1.06e+00 | 0.1177 |
5771 | PTPN2 | P4T-E | Human | Esophagus | ESCC | 1.01e-35 | 9.74e-01 | 0.1323 |
5771 | PTPN2 | P5T-E | Human | Esophagus | ESCC | 3.79e-53 | 1.19e+00 | 0.1327 |
5771 | PTPN2 | P8T-E | Human | Esophagus | ESCC | 7.97e-36 | 7.79e-01 | 0.0889 |
5771 | PTPN2 | P9T-E | Human | Esophagus | ESCC | 5.37e-25 | 8.11e-01 | 0.1131 |
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∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
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Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | ![]() |
Colorectum | SER | ![]() |
Colorectum | MSS | ![]() |
Colorectum | MSI-H | ![]() |
Colorectum | FAP | ![]() |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00513488 | Lung | IAC | negative regulation of transferase activity | 52/2061 | 268/18723 | 3.30e-05 | 8.29e-04 | 52 |
GO:00328696 | Lung | IAC | cellular response to insulin stimulus | 42/2061 | 203/18723 | 3.96e-05 | 9.64e-04 | 42 |
GO:00224078 | Lung | IAC | regulation of cell-cell adhesion | 76/2061 | 448/18723 | 8.16e-05 | 1.68e-03 | 76 |
GO:00700597 | Lung | IAC | intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress | 18/2061 | 63/18723 | 1.04e-04 | 2.02e-03 | 18 |
GO:00512357 | Lung | IAC | maintenance of location | 58/2061 | 327/18723 | 1.66e-04 | 2.96e-03 | 58 |
GO:00480083 | Lung | IAC | platelet-derived growth factor receptor signaling pathway | 16/2061 | 56/18723 | 2.48e-04 | 4.20e-03 | 16 |
GO:00353353 | Lung | IAC | peptidyl-tyrosine dephosphorylation | 23/2061 | 97/18723 | 2.79e-04 | 4.56e-03 | 23 |
GO:19011856 | Lung | IAC | negative regulation of ERBB signaling pathway | 11/2061 | 32/18723 | 4.00e-04 | 6.07e-03 | 11 |
GO:00346127 | Lung | IAC | response to tumor necrosis factor | 46/2061 | 253/18723 | 4.28e-04 | 6.37e-03 | 46 |
GO:20012355 | Lung | IAC | positive regulation of apoptotic signaling pathway | 27/2061 | 126/18723 | 5.01e-04 | 7.25e-03 | 27 |
GO:00420596 | Lung | IAC | negative regulation of epidermal growth factor receptor signaling pathway | 10/2061 | 28/18723 | 5.17e-04 | 7.37e-03 | 10 |
GO:00349768 | Lung | IAC | response to endoplasmic reticulum stress | 46/2061 | 256/18723 | 5.58e-04 | 7.76e-03 | 46 |
GO:00421106 | Lung | IAC | T cell activation | 77/2061 | 487/18723 | 6.82e-04 | 9.20e-03 | 77 |
GO:00064698 | Lung | IAC | negative regulation of protein kinase activity | 39/2061 | 212/18723 | 8.93e-04 | 1.11e-02 | 39 |
GO:00108833 | Lung | IAC | regulation of lipid storage | 15/2061 | 57/18723 | 9.93e-04 | 1.19e-02 | 15 |
GO:00359668 | Lung | IAC | response to topologically incorrect protein | 31/2061 | 159/18723 | 1.10e-03 | 1.29e-02 | 31 |
GO:00713567 | Lung | IAC | cellular response to tumor necrosis factor | 41/2061 | 229/18723 | 1.16e-03 | 1.35e-02 | 41 |
GO:00336737 | Lung | IAC | negative regulation of kinase activity | 42/2061 | 237/18723 | 1.25e-03 | 1.44e-02 | 42 |
GO:00071596 | Lung | IAC | leukocyte cell-cell adhesion | 60/2061 | 371/18723 | 1.47e-03 | 1.57e-02 | 60 |
GO:00082864 | Lung | IAC | insulin receptor signaling pathway | 24/2061 | 116/18723 | 1.66e-03 | 1.74e-02 | 24 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04630 | Oral cavity | EOLP | JAK-STAT signaling pathway | 35/1218 | 166/8465 | 1.15e-02 | 3.07e-02 | 1.81e-02 | 35 |
hsa046301 | Oral cavity | EOLP | JAK-STAT signaling pathway | 35/1218 | 166/8465 | 1.15e-02 | 3.07e-02 | 1.81e-02 | 35 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
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Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
PTPN2 | SNV | Missense_Mutation | c.193G>C | p.Glu65Gln | p.E65Q | P17706 | protein_coding | tolerated(0.11) | benign(0.153) | TCGA-AN-A0XW-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
PTPN2 | SNV | Missense_Mutation | c.491T>G | p.Ile164Ser | p.I164S | P17706 | protein_coding | deleterious(0.03) | benign(0.143) | TCGA-C8-A12L-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PTPN2 | SNV | Missense_Mutation | rs779158537 | c.1054N>T | p.Arg352Cys | p.R352C | P17706 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
PTPN2 | SNV | Missense_Mutation | c.312N>C | p.Gln104His | p.Q104H | P17706 | protein_coding | deleterious(0) | probably_damaging(0.973) | TCGA-C5-A1MH-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | PD | |
PTPN2 | SNV | Missense_Mutation | novel | c.890N>C | p.Leu297Ser | p.L297S | P17706 | protein_coding | tolerated(0.25) | benign(0.137) | TCGA-DS-A1OD-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD |
PTPN2 | SNV | Missense_Mutation | c.49C>T | p.Arg17Cys | p.R17C | P17706 | protein_coding | tolerated(0.05) | benign(0.003) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
PTPN2 | insertion | Frame_Shift_Ins | novel | c.891_892insCTGT | p.Ser298LeufsTer6 | p.S298Lfs*6 | P17706 | protein_coding | TCGA-DS-A1OD-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD | ||
PTPN2 | deletion | Frame_Shift_Del | novel | c.922_925delATAA | p.Ile308Ter | p.I308* | P17706 | protein_coding | TCGA-EA-A410-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | ||
PTPN2 | SNV | Missense_Mutation | novel | c.139N>G | p.Arg47Gly | p.R47G | P17706 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-5M-AAT6-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | PD |
PTPN2 | SNV | Missense_Mutation | c.242N>C | p.Arg81Thr | p.R81T | P17706 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AA-3930-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | capecitabine | PD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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