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Gene: PTN |
Gene summary for PTN |
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Gene information | Species | Human | Gene symbol | PTN | Gene ID | 5764 |
Gene name | pleiotrophin | |
Gene Alias | HARP | |
Cytomap | 7q33 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | A0A024R778 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5764 | PTN | GSM4909281 | Human | Breast | IDC | 4.32e-06 | -6.65e-02 | 0.21 |
5764 | PTN | GSM4909282 | Human | Breast | IDC | 2.50e-03 | -3.02e-01 | -0.0288 |
5764 | PTN | GSM4909285 | Human | Breast | IDC | 7.79e-05 | -3.03e-01 | 0.21 |
5764 | PTN | GSM4909286 | Human | Breast | IDC | 1.72e-05 | -3.12e-01 | 0.1081 |
5764 | PTN | GSM4909290 | Human | Breast | IDC | 2.64e-02 | -3.12e-01 | 0.2096 |
5764 | PTN | GSM4909299 | Human | Breast | IDC | 8.68e-87 | 1.66e+00 | 0.035 |
5764 | PTN | GSM4909300 | Human | Breast | IDC | 1.71e-17 | 1.10e+00 | 0.0334 |
5764 | PTN | GSM4909301 | Human | Breast | IDC | 7.79e-05 | -3.12e-01 | 0.1577 |
5764 | PTN | GSM4909304 | Human | Breast | IDC | 7.79e-05 | -3.09e-01 | 0.1636 |
5764 | PTN | GSM4909305 | Human | Breast | IDC | 8.54e-16 | 8.27e-01 | 0.0436 |
5764 | PTN | GSM4909309 | Human | Breast | IDC | 1.48e-62 | 1.54e+00 | 0.0483 |
5764 | PTN | GSM4909312 | Human | Breast | IDC | 1.72e-05 | -3.12e-01 | 0.1552 |
5764 | PTN | GSM4909313 | Human | Breast | IDC | 1.63e-23 | 9.90e-01 | 0.0391 |
5764 | PTN | GSM4909315 | Human | Breast | IDC | 7.79e-05 | -3.12e-01 | 0.21 |
5764 | PTN | GSM4909319 | Human | Breast | IDC | 7.79e-05 | -3.12e-01 | 0.1563 |
5764 | PTN | GSM4909321 | Human | Breast | IDC | 3.66e-05 | -3.12e-01 | 0.1559 |
5764 | PTN | NCCBC3 | Human | Breast | DCIS | 4.12e-54 | 1.23e+00 | 0.1198 |
5764 | PTN | DCIS2 | Human | Breast | DCIS | 7.06e-135 | 1.97e+00 | 0.0085 |
5764 | PTN | AEH-subject1 | Human | Endometrium | AEH | 7.30e-22 | -5.82e-01 | -0.3059 |
5764 | PTN | AEH-subject2 | Human | Endometrium | AEH | 6.64e-25 | -5.74e-01 | -0.2525 |
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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:006172623 | Thyroid | ATC | mitochondrion disassembly | 55/6293 | 81/18723 | 2.88e-10 | 8.17e-09 | 55 |
GO:001097523 | Thyroid | ATC | regulation of neuron projection development | 212/6293 | 445/18723 | 4.16e-10 | 1.14e-08 | 212 |
GO:006156423 | Thyroid | ATC | axon development | 220/6293 | 467/18723 | 6.85e-10 | 1.80e-08 | 220 |
GO:0048545210 | Thyroid | ATC | response to steroid hormone | 168/6293 | 339/18723 | 7.21e-10 | 1.88e-08 | 168 |
GO:000188927 | Thyroid | ATC | liver development | 85/6293 | 147/18723 | 1.37e-09 | 3.43e-08 | 85 |
GO:003462033 | Thyroid | ATC | cellular response to unfolded protein | 61/6293 | 96/18723 | 1.84e-09 | 4.52e-08 | 61 |
GO:000689318 | Thyroid | ATC | Golgi to plasma membrane transport | 43/6293 | 60/18723 | 1.85e-09 | 4.53e-08 | 43 |
GO:006100827 | Thyroid | ATC | hepaticobiliary system development | 86/6293 | 150/18723 | 1.96e-09 | 4.78e-08 | 86 |
GO:190165427 | Thyroid | ATC | response to ketone | 105/6293 | 194/18723 | 2.96e-09 | 6.96e-08 | 105 |
GO:0010811210 | Thyroid | ATC | positive regulation of cell-substrate adhesion | 73/6293 | 123/18723 | 4.12e-09 | 9.37e-08 | 73 |
GO:007147825 | Thyroid | ATC | cellular response to radiation | 101/6293 | 186/18723 | 4.67e-09 | 1.04e-07 | 101 |
GO:000740919 | Thyroid | ATC | axonogenesis | 197/6293 | 418/18723 | 5.09e-09 | 1.13e-07 | 197 |
GO:1905475111 | Thyroid | ATC | regulation of protein localization to membrane | 96/6293 | 175/18723 | 5.55e-09 | 1.22e-07 | 96 |
GO:001050817 | Thyroid | ATC | positive regulation of autophagy | 73/6293 | 124/18723 | 6.74e-09 | 1.46e-07 | 73 |
GO:000941115 | Thyroid | ATC | response to UV | 84/6293 | 149/18723 | 8.97e-09 | 1.90e-07 | 84 |
GO:003166927 | Thyroid | ATC | cellular response to nutrient levels | 112/6293 | 215/18723 | 1.57e-08 | 3.20e-07 | 112 |
GO:003166827 | Thyroid | ATC | cellular response to extracellular stimulus | 125/6293 | 246/18723 | 1.65e-08 | 3.31e-07 | 125 |
GO:000931426 | Thyroid | ATC | response to radiation | 210/6293 | 456/18723 | 1.69e-08 | 3.39e-07 | 210 |
GO:001072022 | Thyroid | ATC | positive regulation of cell development | 146/6293 | 298/18723 | 2.36e-08 | 4.56e-07 | 146 |
GO:003464415 | Thyroid | ATC | cellular response to UV | 56/6293 | 90/18723 | 2.53e-08 | 4.86e-07 | 56 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
PTN | SDC1 | PTN_SDC1 | PTN | Breast | DCIS |
PTN | SDC2 | PTN_SDC2 | PTN | Breast | DCIS |
PTN | SDC3 | PTN_SDC3 | PTN | Breast | DCIS |
PTN | SDC4 | PTN_SDC4 | PTN | Breast | DCIS |
PTN | NCL | PTN_NCL | PTN | Breast | DCIS |
PTN | SDC1 | PTN_SDC1 | PTN | Breast | Healthy |
PTN | SDC2 | PTN_SDC2 | PTN | Breast | Healthy |
PTN | SDC4 | PTN_SDC4 | PTN | Breast | Healthy |
PTN | NCL | PTN_NCL | PTN | Breast | Healthy |
PTN | SDC1 | PTN_SDC1 | PTN | Cervix | ADJ |
PTN | SDC2 | PTN_SDC2 | PTN | Cervix | ADJ |
PTN | SDC4 | PTN_SDC4 | PTN | Cervix | ADJ |
PTN | NCL | PTN_NCL | PTN | Cervix | ADJ |
PTN | PTPRZ1 | PTN_PTPRZ1 | PTN | Cervix | CC |
PTN | SDC1 | PTN_SDC1 | PTN | Cervix | CC |
PTN | SDC2 | PTN_SDC2 | PTN | Cervix | CC |
PTN | SDC3 | PTN_SDC3 | PTN | Cervix | CC |
PTN | SDC4 | PTN_SDC4 | PTN | Cervix | CC |
PTN | NCL | PTN_NCL | PTN | Cervix | CC |
PTN | SDC1 | PTN_SDC1 | PTN | Cervix | Precancer |
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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 |
PTN | SNV | Missense_Mutation | c.51N>A | p.Phe17Leu | p.F17L | P21246 | protein_coding | tolerated(0.72) | benign(0) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PTN | SNV | Missense_Mutation | rs559496875 | c.388G>A | p.Glu130Lys | p.E130K | P21246 | protein_coding | deleterious(0.03) | benign(0.18) | TCGA-BH-A2L8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | CR |
PTN | SNV | Missense_Mutation | rs760057615 | c.413C>T | p.Ser138Phe | p.S138F | P21246 | protein_coding | deleterious(0) | probably_damaging(0.939) | TCGA-C8-A8HP-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | 5-fluorouracil | CR |
PTN | SNV | Missense_Mutation | novel | c.157N>T | p.Ser53Cys | p.S53C | P21246 | protein_coding | deleterious(0.05) | probably_damaging(0.985) | TCGA-DS-A1OC-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | gemcitabine | SD |
PTN | insertion | Frame_Shift_Ins | novel | c.155_156insTGTGTGTGTGTGTGTGTGTGTGT | p.Trp52CysfsTer9 | p.W52Cfs*9 | P21246 | protein_coding | TCGA-DS-A1OC-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | gemcitabine | SD | ||
PTN | SNV | Missense_Mutation | c.340N>T | p.Ala114Ser | p.A114S | P21246 | protein_coding | tolerated(0.06) | benign(0.203) | TCGA-A6-5657-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Ancillary | leucovorin | SD | |
PTN | SNV | Missense_Mutation | c.438G>T | p.Lys146Asn | p.K146N | P21246 | protein_coding | tolerated(0.11) | probably_damaging(0.995) | TCGA-AA-3821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PTN | SNV | Missense_Mutation | c.160N>T | p.Val54Leu | p.V54L | P21246 | protein_coding | tolerated(0.29) | possibly_damaging(0.825) | TCGA-AA-3986-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
PTN | SNV | Missense_Mutation | c.454G>A | p.Glu152Lys | p.E152K | P21246 | protein_coding | tolerated(0.59) | probably_damaging(0.973) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
PTN | SNV | Missense_Mutation | c.359N>T | p.Gly120Val | p.G120V | P21246 | protein_coding | deleterious(0) | possibly_damaging(0.903) | TCGA-AG-A02G-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | folinic | 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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