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Gene: PDPN |
Gene summary for PDPN |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | PDPN | Gene ID | 10630 |
| Gene name | podoplanin | |
| Gene Alias | AGGRUS | |
| Cytomap | 1p36.21 | |
| Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | Q86YL7 |
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Malignant transformation analysis |
| Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
| Malignant transformation involving gene list. |
| Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
| 10630 | PDPN | LZE6T | Human | Esophagus | ESCC | 3.16e-06 | 3.45e-01 | 0.0845 |
| 10630 | PDPN | P2T-E | Human | Esophagus | ESCC | 4.40e-21 | 6.38e-01 | 0.1177 |
| 10630 | PDPN | P4T-E | Human | Esophagus | ESCC | 4.93e-05 | 9.30e-01 | 0.1323 |
| 10630 | PDPN | P5T-E | Human | Esophagus | ESCC | 2.38e-69 | 1.87e+00 | 0.1327 |
| 10630 | PDPN | P8T-E | Human | Esophagus | ESCC | 2.76e-07 | 3.79e-01 | 0.0889 |
| 10630 | PDPN | P9T-E | Human | Esophagus | ESCC | 9.68e-21 | 1.38e+00 | 0.1131 |
| 10630 | PDPN | P10T-E | Human | Esophagus | ESCC | 2.27e-100 | 3.29e+00 | 0.116 |
| 10630 | PDPN | P11T-E | Human | Esophagus | ESCC | 3.37e-29 | 2.09e+00 | 0.1426 |
| 10630 | PDPN | P12T-E | Human | Esophagus | ESCC | 7.94e-30 | 8.49e-01 | 0.1122 |
| 10630 | PDPN | P15T-E | Human | Esophagus | ESCC | 1.04e-19 | 1.14e+00 | 0.1149 |
| 10630 | PDPN | P16T-E | Human | Esophagus | ESCC | 8.78e-03 | -4.02e-02 | 0.1153 |
| 10630 | PDPN | P17T-E | Human | Esophagus | ESCC | 1.36e-09 | 1.12e+00 | 0.1278 |
| 10630 | PDPN | P19T-E | Human | Esophagus | ESCC | 1.60e-13 | 1.92e+00 | 0.1662 |
| 10630 | PDPN | P21T-E | Human | Esophagus | ESCC | 4.83e-40 | 1.16e+00 | 0.1617 |
| 10630 | PDPN | P22T-E | Human | Esophagus | ESCC | 5.67e-44 | 1.12e+00 | 0.1236 |
| 10630 | PDPN | P23T-E | Human | Esophagus | ESCC | 4.73e-02 | 6.86e-01 | 0.108 |
| 10630 | PDPN | P26T-E | Human | Esophagus | ESCC | 1.07e-09 | 2.27e-01 | 0.1276 |
| 10630 | PDPN | P27T-E | Human | Esophagus | ESCC | 5.79e-07 | 3.83e-01 | 0.1055 |
| 10630 | PDPN | P28T-E | Human | Esophagus | ESCC | 3.45e-09 | 5.16e-01 | 0.1149 |
| 10630 | PDPN | P30T-E | Human | Esophagus | ESCC | 6.82e-09 | 1.10e+00 | 0.137 |
| Page: 1 2 3 4 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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 |
| Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
| Figure of enriched GO biological processes. |
| 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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:004578519 | Prostate | Tumor | positive regulation of cell adhesion | 125/3246 | 437/18723 | 2.56e-09 | 1.08e-07 | 125 |
| GO:001076917 | Prostate | Tumor | regulation of cell morphogenesis involved in differentiation | 41/3246 | 96/18723 | 5.10e-09 | 2.05e-07 | 41 |
| GO:000726514 | Prostate | Tumor | Ras protein signal transduction | 101/3246 | 337/18723 | 6.29e-09 | 2.44e-07 | 101 |
| GO:003444617 | Prostate | Tumor | substrate adhesion-dependent cell spreading | 44/3246 | 108/18723 | 8.25e-09 | 3.15e-07 | 44 |
| GO:001081018 | Prostate | Tumor | regulation of cell-substrate adhesion | 73/3246 | 221/18723 | 9.68e-09 | 3.62e-07 | 73 |
| GO:007048218 | Prostate | Tumor | response to oxygen levels | 102/3246 | 347/18723 | 1.62e-08 | 5.75e-07 | 102 |
| GO:190002417 | Prostate | Tumor | regulation of substrate adhesion-dependent cell spreading | 28/3246 | 57/18723 | 3.51e-08 | 1.11e-06 | 28 |
| GO:000315815 | Prostate | Tumor | endothelium development | 50/3246 | 136/18723 | 4.60e-08 | 1.42e-06 | 50 |
| GO:004544614 | Prostate | Tumor | endothelial cell differentiation | 45/3246 | 118/18723 | 6.08e-08 | 1.80e-06 | 45 |
| GO:002241118 | Prostate | Tumor | cellular component disassembly | 121/3246 | 443/18723 | 8.10e-08 | 2.23e-06 | 121 |
| GO:000836015 | Prostate | Tumor | regulation of cell shape | 51/3246 | 154/18723 | 1.42e-06 | 2.56e-05 | 51 |
| GO:000183713 | Prostate | Tumor | epithelial to mesenchymal transition | 50/3246 | 157/18723 | 6.33e-06 | 9.64e-05 | 50 |
| GO:003410918 | Prostate | Tumor | homotypic cell-cell adhesion | 33/3246 | 90/18723 | 9.06e-06 | 1.32e-04 | 33 |
| GO:004431912 | Prostate | Tumor | wound healing, spreading of cells | 17/3246 | 34/18723 | 1.28e-05 | 1.78e-04 | 17 |
| GO:009050512 | Prostate | Tumor | epiboly involved in wound healing | 17/3246 | 34/18723 | 1.28e-05 | 1.78e-04 | 17 |
| GO:009050412 | Prostate | Tumor | epiboly | 17/3246 | 35/18723 | 2.09e-05 | 2.71e-04 | 17 |
| GO:002240717 | Prostate | Tumor | regulation of cell-cell adhesion | 112/3246 | 448/18723 | 2.20e-05 | 2.80e-04 | 112 |
| GO:000201112 | Prostate | Tumor | morphogenesis of an epithelial sheet | 23/3246 | 57/18723 | 3.51e-05 | 4.11e-04 | 23 |
| GO:004876213 | Prostate | Tumor | mesenchymal cell differentiation | 64/3246 | 236/18723 | 1.08e-04 | 1.03e-03 | 64 |
| GO:190274313 | Prostate | Tumor | regulation of lamellipodium organization | 21/3246 | 54/18723 | 1.42e-04 | 1.30e-03 | 21 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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Cell-cell communication analysis |
| Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
| Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
| Page: 1 |
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Single-cell gene regulatory network inference analysis |
| Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
| 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. |
| Page: 1 |
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Somatic mutation of malignant transformation related genes |
| Annotation of somatic variants for genes involved in malignant transformation |
| 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 |
| PDPN | deletion | Frame_Shift_Del | novel | c.640delG | p.Val214SerfsTer3 | p.V214Sfs*3 | Q86YL7 | protein_coding | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD | ||
| PDPN | SNV | Missense_Mutation | c.16G>A | p.Gly6Arg | p.G6R | Q86YL7 | protein_coding | tolerated_low_confidence(0.07) | benign(0.013) | TCGA-3L-AA1B-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| PDPN | SNV | Missense_Mutation | rs140760055 | c.263N>A | p.Gly88Glu | p.G88E | Q86YL7 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-A01K-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | folinic | CR |
| PDPN | SNV | Missense_Mutation | c.353N>T | p.Ala118Val | p.A118V | Q86YL7 | protein_coding | tolerated(1) | benign(0) | TCGA-G4-6588-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| PDPN | SNV | Missense_Mutation | rs377220172 | c.676G>A | p.Val226Ile | p.V226I | Q86YL7 | protein_coding | tolerated(1) | benign(0) | TCGA-AG-4005-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | folinic | CR |
| PDPN | deletion | Frame_Shift_Del | c.113delN | p.Pro40HisfsTer16 | p.P40Hfs*16 | Q86YL7 | protein_coding | TCGA-AD-A5EJ-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
| PDPN | SNV | Missense_Mutation | novel | c.327N>T | p.Glu109Asp | p.E109D | Q86YL7 | protein_coding | tolerated(0.53) | benign(0.114) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| PDPN | SNV | Missense_Mutation | c.517N>T | p.Pro173Ser | p.P173S | Q86YL7 | protein_coding | tolerated(0.26) | benign(0.086) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
| PDPN | SNV | Missense_Mutation | c.582N>T | p.Gln194His | p.Q194H | Q86YL7 | protein_coding | deleterious(0.03) | possibly_damaging(0.871) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| PDPN | SNV | Missense_Mutation | novel | c.434C>T | p.Ala145Val | p.A145V | Q86YL7 | protein_coding | tolerated(0.22) | benign(0.097) | TCGA-AJ-A3NE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 |
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Related drugs of malignant transformation related genes |
| Identification of chemicals and drugs interact with genes involved in malignant transfromation |
| (DGIdb 4.0) |
| Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
| Page: 1 |
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