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Gene: WDR43 |
Gene summary for WDR43 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | WDR43 | Gene ID | 23160 |
| Gene name | WD repeat domain 43 | |
| Gene Alias | NET12 | |
| Cytomap | 2p23.2 | |
| Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | Q15061 |
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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 |
| 23160 | WDR43 | N_HPV_2 | Human | Cervix | N_HPV | 9.55e-03 | 1.95e-01 | -0.0131 |
| 23160 | WDR43 | CCI_2 | Human | Cervix | CC | 1.16e-09 | 1.12e+00 | 0.5249 |
| 23160 | WDR43 | CCI_3 | Human | Cervix | CC | 1.20e-04 | 5.30e-01 | 0.516 |
| 23160 | WDR43 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.98e-11 | -5.44e-01 | 0.0155 |
| 23160 | WDR43 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.61e-05 | -5.58e-01 | -0.1808 |
| 23160 | WDR43 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.24e-06 | -6.37e-01 | -0.1207 |
| 23160 | WDR43 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.17e-21 | -5.19e-01 | -0.1464 |
| 23160 | WDR43 | HTA11_866_2000001011 | Human | Colorectum | AD | 1.03e-14 | -4.84e-01 | -0.1001 |
| 23160 | WDR43 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.55e-02 | -4.99e-01 | 0.0338 |
| 23160 | WDR43 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.85e-09 | -4.12e-01 | 0.0674 |
| 23160 | WDR43 | HTA11_6818_2000001021 | Human | Colorectum | AD | 3.78e-03 | -5.41e-01 | 0.0588 |
| 23160 | WDR43 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.55e-09 | -2.73e-01 | 0.294 |
| 23160 | WDR43 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.97e-07 | -3.41e-01 | 0.3005 |
| 23160 | WDR43 | A002-C-010 | Human | Colorectum | FAP | 4.50e-04 | -2.97e-01 | 0.242 |
| 23160 | WDR43 | A001-C-207 | Human | Colorectum | FAP | 2.82e-02 | -1.94e-01 | 0.1278 |
| 23160 | WDR43 | A015-C-203 | Human | Colorectum | FAP | 6.32e-28 | -5.15e-01 | -0.1294 |
| 23160 | WDR43 | A015-C-204 | Human | Colorectum | FAP | 3.09e-06 | -2.99e-01 | -0.0228 |
| 23160 | WDR43 | A014-C-040 | Human | Colorectum | FAP | 8.73e-06 | -5.96e-01 | -0.1184 |
| 23160 | WDR43 | A002-C-201 | Human | Colorectum | FAP | 4.12e-13 | -4.10e-01 | 0.0324 |
| 23160 | WDR43 | A002-C-203 | Human | Colorectum | FAP | 3.43e-05 | -2.48e-01 | 0.2786 |
| Page: 1 2 3 4 5 6 7 8 9 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Cervix |  | CC: Cervix cancer |
| HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions | ||
| N_HPV: HPV-infected normal cervix | ||
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| 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:00063686 | Oral cavity | OSCC | transcription elongation from RNA polymerase II promoter | 48/7305 | 69/18723 | 2.60e-07 | 4.05e-06 | 48 |
| GO:00987277 | Oral cavity | OSCC | maintenance of cell number | 81/7305 | 134/18723 | 3.96e-07 | 5.90e-06 | 81 |
| GO:00198276 | Oral cavity | OSCC | stem cell population maintenance | 79/7305 | 131/18723 | 6.28e-07 | 8.96e-06 | 79 |
| GO:00327843 | Oral cavity | OSCC | regulation of DNA-templated transcription, elongation | 36/7305 | 53/18723 | 1.89e-05 | 1.83e-04 | 36 |
| GO:00342434 | Oral cavity | OSCC | regulation of transcription elongation from RNA polymerase II promoter | 24/7305 | 32/18723 | 3.83e-05 | 3.37e-04 | 24 |
| GO:00063563 | Oral cavity | OSCC | regulation of transcription by RNA polymerase I | 25/7305 | 34/18723 | 4.63e-05 | 3.90e-04 | 25 |
| GO:00063601 | Oral cavity | OSCC | transcription by RNA polymerase I | 36/7305 | 55/18723 | 6.42e-05 | 5.22e-04 | 36 |
| GO:00459431 | Oral cavity | OSCC | positive regulation of transcription by RNA polymerase I | 18/7305 | 23/18723 | 1.47e-04 | 1.04e-03 | 18 |
| GO:002261333 | Oral cavity | NEOLP | ribonucleoprotein complex biogenesis | 93/2005 | 463/18723 | 1.34e-09 | 9.49e-08 | 93 |
| GO:001982721 | Oral cavity | NEOLP | stem cell population maintenance | 34/2005 | 131/18723 | 6.89e-07 | 1.93e-05 | 34 |
| GO:009872721 | Oral cavity | NEOLP | maintenance of cell number | 34/2005 | 134/18723 | 1.21e-06 | 3.13e-05 | 34 |
| GO:004225433 | Oral cavity | NEOLP | ribosome biogenesis | 55/2005 | 299/18723 | 4.32e-05 | 6.10e-04 | 55 |
| GO:00342433 | Oral cavity | NEOLP | regulation of transcription elongation from RNA polymerase II promoter | 10/2005 | 32/18723 | 1.36e-03 | 9.75e-03 | 10 |
| GO:000636431 | Oral cavity | NEOLP | rRNA processing | 38/2005 | 225/18723 | 3.05e-03 | 1.86e-02 | 38 |
| GO:001607231 | Oral cavity | NEOLP | rRNA metabolic process | 39/2005 | 236/18723 | 4.00e-03 | 2.28e-02 | 39 |
| GO:2000036 | Oral cavity | NEOLP | regulation of stem cell population maintenance | 9/2005 | 33/18723 | 6.45e-03 | 3.32e-02 | 9 |
| GO:002261318 | Prostate | BPH | ribonucleoprotein complex biogenesis | 150/3107 | 463/18723 | 2.18e-17 | 5.62e-15 | 150 |
| GO:004225418 | Prostate | BPH | ribosome biogenesis | 90/3107 | 299/18723 | 3.82e-09 | 1.44e-07 | 90 |
| GO:00987276 | Prostate | BPH | maintenance of cell number | 43/3107 | 134/18723 | 7.29e-06 | 1.04e-04 | 43 |
| GO:00198275 | Prostate | BPH | stem cell population maintenance | 42/3107 | 131/18723 | 9.49e-06 | 1.33e-04 | 42 |
| Page: 1 2 3 4 5 6 7 8 9 10 |
| 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 |
| WDR43 | SNV | Missense_Mutation | rs752884679 | c.1376N>T | p.Thr459Met | p.T459M | Q15061 | protein_coding | deleterious(0) | benign(0.037) | TCGA-A2-A0CX-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD |
| WDR43 | SNV | Missense_Mutation | rs779467686 | c.563N>A | p.Arg188Gln | p.R188Q | Q15061 | protein_coding | tolerated(0.07) | possibly_damaging(0.616) | TCGA-BH-A1EV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | PD |
| WDR43 | insertion | Frame_Shift_Ins | novel | c.1421_1422insCCCACTCAACCAAAAG | p.Phe475ProfsTer7 | p.F475Pfs*7 | Q15061 | protein_coding | TCGA-AO-A0JB-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cyclophosphamide | SD | ||
| WDR43 | insertion | In_Frame_Ins | novel | c.2013_2014insTTT | p.Glu671_Asn672insPhe | p.E671_N672insF | Q15061 | protein_coding | TCGA-AR-A0U2-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | tamoxiphen | PD | ||
| WDR43 | insertion | Frame_Shift_Ins | novel | c.2014_2015insCTTTTAGAAAT | p.Asn672ThrfsTer75 | p.N672Tfs*75 | Q15061 | protein_coding | TCGA-AR-A0U2-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | tamoxiphen | PD | ||
| WDR43 | SNV | Missense_Mutation | rs371667538 | c.1393C>T | p.Leu465Phe | p.L465F | Q15061 | protein_coding | deleterious(0) | probably_damaging(0.974) | TCGA-EK-A3GK-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| WDR43 | SNV | Missense_Mutation | rs775251293 | c.862G>A | p.Ala288Thr | p.A288T | Q15061 | protein_coding | tolerated(0.13) | probably_damaging(0.942) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| WDR43 | SNV | Missense_Mutation | novel | c.1741N>A | p.Ala581Thr | p.A581T | Q15061 | protein_coding | tolerated(0.21) | benign(0.012) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
| WDR43 | SNV | Missense_Mutation | c.544N>G | p.Met182Val | p.M182V | Q15061 | protein_coding | tolerated(0.46) | benign(0.05) | TCGA-AA-A01V-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
| WDR43 | SNV | Missense_Mutation | novel | c.1102G>A | p.Glu368Lys | p.E368K | Q15061 | protein_coding | deleterious(0.01) | benign(0.24) | TCGA-AG-3892-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 |
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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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