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Gene: NECTIN4 |
Gene summary for NECTIN4 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | NECTIN4 | Gene ID | 81607 |
| Gene name | nectin cell adhesion molecule 4 | |
| Gene Alias | EDSS1 | |
| Cytomap | 1q23.3 | |
| Gene Type | protein-coding | GO ID | GO:0007155 | UniProtAcc | K4PZ75 |
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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 |
| 81607 | NECTIN4 | GSM4909281 | Human | Breast | IDC | 6.24e-04 | 1.60e-01 | 0.21 |
| 81607 | NECTIN4 | GSM4909282 | Human | Breast | IDC | 7.49e-31 | 6.82e-01 | -0.0288 |
| 81607 | NECTIN4 | GSM4909285 | Human | Breast | IDC | 8.83e-42 | 6.38e-01 | 0.21 |
| 81607 | NECTIN4 | GSM4909286 | Human | Breast | IDC | 6.98e-07 | 1.86e-01 | 0.1081 |
| 81607 | NECTIN4 | GSM4909295 | Human | Breast | IDC | 3.71e-08 | 5.03e-01 | 0.0898 |
| 81607 | NECTIN4 | GSM4909298 | Human | Breast | IDC | 1.20e-19 | 3.68e-01 | 0.1551 |
| 81607 | NECTIN4 | GSM4909299 | Human | Breast | IDC | 1.08e-04 | 1.80e-01 | 0.035 |
| 81607 | NECTIN4 | GSM4909300 | Human | Breast | IDC | 6.65e-04 | 3.75e-01 | 0.0334 |
| 81607 | NECTIN4 | GSM4909305 | Human | Breast | IDC | 6.48e-04 | 2.91e-01 | 0.0436 |
| 81607 | NECTIN4 | GSM4909306 | Human | Breast | IDC | 4.42e-05 | 2.00e-01 | 0.1564 |
| 81607 | NECTIN4 | GSM4909307 | Human | Breast | IDC | 7.24e-07 | 2.61e-01 | 0.1569 |
| 81607 | NECTIN4 | GSM4909313 | Human | Breast | IDC | 8.53e-04 | 3.16e-01 | 0.0391 |
| 81607 | NECTIN4 | GSM4909317 | Human | Breast | IDC | 3.63e-04 | 2.55e-01 | 0.1355 |
| 81607 | NECTIN4 | ctrl6 | Human | Breast | Precancer | 8.95e-17 | 6.70e-01 | -0.0061 |
| 81607 | NECTIN4 | brca10 | Human | Breast | Precancer | 2.99e-03 | 2.84e-01 | -0.0029 |
| 81607 | NECTIN4 | DCIS2 | Human | Breast | DCIS | 5.69e-52 | 3.25e-01 | 0.0085 |
| 81607 | NECTIN4 | CCI_1 | Human | Cervix | CC | 3.04e-21 | 1.51e+00 | 0.528 |
| 81607 | NECTIN4 | CCI_3 | Human | Cervix | CC | 2.87e-06 | 5.12e-01 | 0.516 |
| 81607 | NECTIN4 | CCII_1 | Human | Cervix | CC | 2.52e-03 | 1.73e-01 | 0.3249 |
| 81607 | NECTIN4 | Tumor | Human | Cervix | CC | 3.40e-02 | -7.84e-02 | 0.1241 |
| Page: 1 2 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Breast |  | IDC: Invasive ductal carcinoma |
| DCIS: Ductal carcinoma in situ | ||
| Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers | ||
| Cervix |  | CC: Cervix cancer |
| HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions | ||
| N_HPV: HPV-infected normal cervix | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| 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:00160329 | Breast | Precancer | viral process | 58/1080 | 415/18723 | 3.42e-10 | 3.16e-08 | 58 |
| GO:00190589 | Breast | Precancer | viral life cycle | 47/1080 | 317/18723 | 2.42e-09 | 1.99e-07 | 47 |
| GO:00444039 | Breast | Precancer | biological process involved in symbiotic interaction | 42/1080 | 290/18723 | 3.40e-08 | 2.11e-06 | 42 |
| GO:00521269 | Breast | Precancer | movement in host environment | 29/1080 | 175/18723 | 2.59e-07 | 1.28e-05 | 29 |
| GO:00517019 | Breast | Precancer | biological process involved in interaction with host | 31/1080 | 203/18723 | 6.52e-07 | 2.71e-05 | 31 |
| GO:00444099 | Breast | Precancer | entry into host | 25/1080 | 151/18723 | 1.74e-06 | 6.19e-05 | 25 |
| GO:00467189 | Breast | Precancer | viral entry into host cell | 24/1080 | 144/18723 | 2.46e-06 | 8.35e-05 | 24 |
| GO:001603214 | Breast | IDC | viral process | 75/1434 | 415/18723 | 1.98e-12 | 4.02e-10 | 75 |
| GO:001905814 | Breast | IDC | viral life cycle | 61/1434 | 317/18723 | 1.61e-11 | 2.77e-09 | 61 |
| GO:004440314 | Breast | IDC | biological process involved in symbiotic interaction | 52/1434 | 290/18723 | 6.55e-09 | 5.03e-07 | 52 |
| GO:005212614 | Breast | IDC | movement in host environment | 32/1434 | 175/18723 | 3.33e-06 | 1.22e-04 | 32 |
| GO:005170114 | Breast | IDC | biological process involved in interaction with host | 35/1434 | 203/18723 | 4.72e-06 | 1.63e-04 | 35 |
| GO:004440914 | Breast | IDC | entry into host | 28/1434 | 151/18723 | 1.02e-05 | 2.82e-04 | 28 |
| GO:004671814 | Breast | IDC | viral entry into host cell | 27/1434 | 144/18723 | 1.18e-05 | 3.14e-04 | 27 |
| GO:001603224 | Breast | DCIS | viral process | 73/1390 | 415/18723 | 3.40e-12 | 6.88e-10 | 73 |
| GO:001905824 | Breast | DCIS | viral life cycle | 59/1390 | 317/18723 | 4.05e-11 | 5.74e-09 | 59 |
| GO:004440323 | Breast | DCIS | biological process involved in symbiotic interaction | 49/1390 | 290/18723 | 4.70e-08 | 2.89e-06 | 49 |
| GO:005212624 | Breast | DCIS | movement in host environment | 31/1390 | 175/18723 | 4.93e-06 | 1.45e-04 | 31 |
| GO:005170124 | Breast | DCIS | biological process involved in interaction with host | 34/1390 | 203/18723 | 6.30e-06 | 1.78e-04 | 34 |
| GO:004440924 | Breast | DCIS | entry into host | 27/1390 | 151/18723 | 1.65e-05 | 4.00e-04 | 27 |
| Page: 1 2 3 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa0452018 | Breast | Precancer | Adherens junction | 17/684 | 93/8465 | 1.11e-03 | 7.57e-03 | 5.80e-03 | 17 |
| hsa0452019 | Breast | Precancer | Adherens junction | 17/684 | 93/8465 | 1.11e-03 | 7.57e-03 | 5.80e-03 | 17 |
| hsa0452020 | Cervix | CC | Adherens junction | 33/1267 | 93/8465 | 6.99e-07 | 7.31e-06 | 4.32e-06 | 33 |
| hsa04520110 | Cervix | CC | Adherens junction | 33/1267 | 93/8465 | 6.99e-07 | 7.31e-06 | 4.32e-06 | 33 |
| hsa0452030 | Esophagus | ESCC | Adherens junction | 69/4205 | 93/8465 | 1.08e-06 | 6.83e-06 | 3.50e-06 | 69 |
| hsa04520114 | Esophagus | ESCC | Adherens junction | 69/4205 | 93/8465 | 1.08e-06 | 6.83e-06 | 3.50e-06 | 69 |
| 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 |
| NECTIN1 | NECTIN4 | NECTIN1_NECTIN4 | NECTIN | Cervix | CC |
| NECTIN1 | NECTIN4 | NECTIN1_NECTIN4 | NECTIN | CRC | MSI-H |
| NECTIN1 | NECTIN4 | NECTIN1_NECTIN4 | NECTIN | Prostate | BPH |
| NECTIN1 | NECTIN4 | NECTIN1_NECTIN4 | NECTIN | Prostate | Healthy |
| NECTIN1 | NECTIN4 | NECTIN1_NECTIN4 | NECTIN | Skin | ADJ |
| NECTIN1 | NECTIN4 | NECTIN1_NECTIN4 | NECTIN | Skin | AK |
| 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 |
| NECTIN4 | SNV | Missense_Mutation | novel | c.1417G>T | p.Asp473Tyr | p.D473Y | Q96NY8 | protein_coding | deleterious(0.02) | probably_damaging(0.936) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | PD |
| NECTIN4 | SNV | Missense_Mutation | novel | c.334G>T | p.Val112Leu | p.V112L | Q96NY8 | protein_coding | tolerated(0.62) | benign(0.015) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | PD |
| NECTIN4 | SNV | Missense_Mutation | novel | c.1069G>A | p.Ala357Thr | p.A357T | Q96NY8 | protein_coding | tolerated(0.06) | benign(0.073) | TCGA-AX-A2HD-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| NECTIN4 | SNV | Missense_Mutation | rs747764624 | c.1411G>A | p.Glu471Lys | p.E471K | Q96NY8 | protein_coding | tolerated(0.15) | benign(0.081) | TCGA-AX-A2IO-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | SD |
| NECTIN4 | SNV | Missense_Mutation | novel | c.24G>T | p.Glu8Asp | p.E8D | Q96NY8 | protein_coding | tolerated_low_confidence(0.12) | benign(0.037) | TCGA-AX-A3FT-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| NECTIN4 | SNV | Missense_Mutation | novel | c.785G>A | p.Gly262Asp | p.G262D | Q96NY8 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-B5-A1MX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Hormone Therapy | megace | SD |
| NECTIN4 | SNV | Missense_Mutation | novel | c.155N>T | p.Cys52Phe | p.C52F | Q96NY8 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| NECTIN4 | SNV | Missense_Mutation | rs769388890 | c.1328G>A | p.Arg443His | p.R443H | Q96NY8 | protein_coding | tolerated(0.1) | probably_damaging(0.991) | TCGA-B5-A3FC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| NECTIN4 | SNV | Missense_Mutation | rs779264059 | c.115N>A | p.Val39Met | p.V39M | Q96NY8 | protein_coding | tolerated(0.24) | benign(0.125) | TCGA-BS-A0UV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| NECTIN4 | SNV | Missense_Mutation | c.1090C>A | p.Leu364Met | p.L364M | Q96NY8 | protein_coding | tolerated(0.13) | probably_damaging(0.996) | TCGA-FI-A2D5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatinum | PD |
| Page: 1 2 3 4 5 6 7 |
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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 |
| 81607 | NECTIN4 | DRUGGABLE GENOME | antibody | 405067331 | ||
| 81607 | NECTIN4 | DRUGGABLE GENOME | ASG-22ME | ENFORTUMAB VEDOTIN | ||
| 81607 | NECTIN4 | DRUGGABLE GENOME | ENFORTUMAB VEDOTIN | 27013195 | ||
| 81607 | NECTIN4 | DRUGGABLE GENOME | ASG-22ME | ENFORTUMAB VEDOTIN | ||
| 81607 | NECTIN4 | DRUGGABLE GENOME | antibody | AGS-22M6E | ENFORTUMAB VEDOTIN | |
| 81607 | NECTIN4 | DRUGGABLE GENOME | enfortumab vedotin | |||
| 81607 | NECTIN4 | DRUGGABLE GENOME | Enfortumab Vedotin-ejfv |
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