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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:00507678 | Prostate | BPH | regulation of neurogenesis | 92/3107 | 364/18723 | 1.36e-05 | 1.78e-04 | 92 |
GO:00508087 | Prostate | BPH | synapse organization | 103/3107 | 426/18723 | 3.19e-05 | 3.61e-04 | 103 |
GO:00615649 | Prostate | BPH | axon development | 111/3107 | 467/18723 | 3.51e-05 | 3.88e-04 | 111 |
GO:00315033 | Prostate | BPH | protein-containing complex localization | 59/3107 | 220/18723 | 8.01e-05 | 7.66e-04 | 59 |
GO:00074099 | Prostate | BPH | axonogenesis | 98/3107 | 418/18723 | 1.68e-04 | 1.45e-03 | 98 |
GO:00434106 | Prostate | BPH | positive regulation of MAPK cascade | 110/3107 | 480/18723 | 1.81e-04 | 1.53e-03 | 110 |
GO:000931414 | Prostate | BPH | response to radiation | 105/3107 | 456/18723 | 2.07e-04 | 1.70e-03 | 105 |
GO:00519623 | Prostate | BPH | positive regulation of nervous system development | 67/3107 | 272/18723 | 4.15e-04 | 3.01e-03 | 67 |
GO:00109762 | Prostate | BPH | positive regulation of neuron projection development | 44/3107 | 163/18723 | 5.23e-04 | 3.68e-03 | 44 |
GO:00519604 | Prostate | BPH | regulation of nervous system development | 100/3107 | 443/18723 | 6.02e-04 | 4.16e-03 | 100 |
GO:0050890 | Prostate | BPH | cognition | 69/3107 | 296/18723 | 1.68e-03 | 9.69e-03 | 69 |
GO:0090287 | Prostate | BPH | regulation of cellular response to growth factor stimulus | 70/3107 | 304/18723 | 2.18e-03 | 1.21e-02 | 70 |
GO:00703715 | Prostate | BPH | ERK1 and ERK2 cascade | 74/3107 | 330/18723 | 3.43e-03 | 1.76e-02 | 74 |
GO:0007611 | Prostate | BPH | learning or memory | 59/3107 | 255/18723 | 4.12e-03 | 2.04e-02 | 59 |
GO:00717742 | Prostate | BPH | response to fibroblast growth factor | 31/3107 | 120/18723 | 6.55e-03 | 2.94e-02 | 31 |
GO:00443441 | Prostate | BPH | cellular response to fibroblast growth factor stimulus | 29/3107 | 113/18723 | 9.17e-03 | 3.91e-02 | 29 |
GO:190382919 | Prostate | Tumor | positive regulation of cellular protein localization | 97/3246 | 276/18723 | 6.35e-13 | 6.58e-11 | 97 |
GO:001072013 | Prostate | Tumor | positive regulation of cell development | 88/3246 | 298/18723 | 1.22e-07 | 3.17e-06 | 88 |
GO:003432915 | Prostate | Tumor | cell junction assembly | 113/3246 | 420/18723 | 4.94e-07 | 1.07e-05 | 113 |
GO:001097514 | Prostate | Tumor | regulation of neuron projection development | 115/3246 | 445/18723 | 3.34e-06 | 5.44e-05 | 115 |
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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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