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Gene: WDR46 |
Gene summary for WDR46 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | WDR46 | Gene ID | 9277 |
| Gene name | WD repeat domain 46 | |
| Gene Alias | BING4 | |
| Cytomap | 6p21.32 | |
| Gene Type | protein-coding | GO ID | GO:0000462 | UniProtAcc | A0A1U9X8W1 |
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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 |
| 9277 | WDR46 | LZE4T | Human | Esophagus | ESCC | 8.11e-04 | 1.11e-01 | 0.0811 |
| 9277 | WDR46 | LZE7T | Human | Esophagus | ESCC | 2.42e-03 | 3.40e-01 | 0.0667 |
| 9277 | WDR46 | LZE8T | Human | Esophagus | ESCC | 1.18e-06 | 2.16e-01 | 0.067 |
| 9277 | WDR46 | LZE24T | Human | Esophagus | ESCC | 3.43e-08 | 3.63e-01 | 0.0596 |
| 9277 | WDR46 | P1T-E | Human | Esophagus | ESCC | 1.32e-05 | 3.42e-01 | 0.0875 |
| 9277 | WDR46 | P2T-E | Human | Esophagus | ESCC | 1.69e-27 | 5.09e-01 | 0.1177 |
| 9277 | WDR46 | P4T-E | Human | Esophagus | ESCC | 7.02e-12 | 3.65e-01 | 0.1323 |
| 9277 | WDR46 | P5T-E | Human | Esophagus | ESCC | 3.94e-14 | 2.90e-01 | 0.1327 |
| 9277 | WDR46 | P8T-E | Human | Esophagus | ESCC | 1.47e-13 | 3.16e-01 | 0.0889 |
| 9277 | WDR46 | P9T-E | Human | Esophagus | ESCC | 2.52e-15 | 3.31e-01 | 0.1131 |
| 9277 | WDR46 | P10T-E | Human | Esophagus | ESCC | 1.39e-19 | 3.01e-01 | 0.116 |
| 9277 | WDR46 | P11T-E | Human | Esophagus | ESCC | 3.34e-11 | 4.98e-01 | 0.1426 |
| 9277 | WDR46 | P12T-E | Human | Esophagus | ESCC | 6.90e-19 | 4.07e-01 | 0.1122 |
| 9277 | WDR46 | P15T-E | Human | Esophagus | ESCC | 2.72e-15 | 2.40e-01 | 0.1149 |
| 9277 | WDR46 | P16T-E | Human | Esophagus | ESCC | 1.70e-27 | 4.53e-01 | 0.1153 |
| 9277 | WDR46 | P17T-E | Human | Esophagus | ESCC | 7.71e-12 | 7.53e-01 | 0.1278 |
| 9277 | WDR46 | P19T-E | Human | Esophagus | ESCC | 2.72e-12 | 1.01e+00 | 0.1662 |
| 9277 | WDR46 | P20T-E | Human | Esophagus | ESCC | 9.47e-11 | 2.09e-01 | 0.1124 |
| 9277 | WDR46 | P21T-E | Human | Esophagus | ESCC | 2.45e-31 | 6.13e-01 | 0.1617 |
| 9277 | WDR46 | P22T-E | Human | Esophagus | ESCC | 1.04e-27 | 4.38e-01 | 0.1236 |
| Page: 1 2 3 4 5 6 |
| 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 | ||
| 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 | ||
| 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:0022613111 | Esophagus | ESCC | ribonucleoprotein complex biogenesis | 365/8552 | 463/18723 | 1.74e-49 | 1.11e-45 | 365 |
| GO:0042254111 | Esophagus | ESCC | ribosome biogenesis | 252/8552 | 299/18723 | 3.27e-44 | 1.04e-40 | 252 |
| GO:003447015 | Esophagus | ESCC | ncRNA processing | 300/8552 | 395/18723 | 3.09e-35 | 3.26e-32 | 300 |
| GO:0016072110 | Esophagus | ESCC | rRNA metabolic process | 197/8552 | 236/18723 | 1.31e-33 | 1.18e-30 | 197 |
| GO:0006364110 | Esophagus | ESCC | rRNA processing | 189/8552 | 225/18723 | 4.88e-33 | 3.87e-30 | 189 |
| GO:003466012 | Esophagus | ESCC | ncRNA metabolic process | 346/8552 | 485/18723 | 4.35e-31 | 2.51e-28 | 346 |
| GO:0042274111 | Esophagus | ESCC | ribosomal small subunit biogenesis | 67/8552 | 73/18723 | 6.62e-17 | 5.38e-15 | 67 |
| GO:00304904 | Esophagus | ESCC | maturation of SSU-rRNA | 45/8552 | 50/18723 | 5.07e-11 | 1.63e-09 | 45 |
| GO:00004623 | Esophagus | ESCC | maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | 32/8552 | 37/18723 | 2.96e-07 | 4.23e-06 | 32 |
| GO:002261312 | Liver | Cirrhotic | ribonucleoprotein complex biogenesis | 231/4634 | 463/18723 | 3.28e-32 | 6.86e-29 | 231 |
| GO:004225412 | Liver | Cirrhotic | ribosome biogenesis | 154/4634 | 299/18723 | 1.18e-23 | 6.72e-21 | 154 |
| GO:000636412 | Liver | Cirrhotic | rRNA processing | 115/4634 | 225/18723 | 1.12e-17 | 1.64e-15 | 115 |
| GO:00160724 | Liver | Cirrhotic | rRNA metabolic process | 119/4634 | 236/18723 | 1.19e-17 | 1.70e-15 | 119 |
| GO:00344701 | Liver | Cirrhotic | ncRNA processing | 158/4634 | 395/18723 | 1.09e-11 | 6.96e-10 | 158 |
| GO:004227412 | Liver | Cirrhotic | ribosomal small subunit biogenesis | 42/4634 | 73/18723 | 2.34e-09 | 9.73e-08 | 42 |
| GO:00346603 | Liver | Cirrhotic | ncRNA metabolic process | 173/4634 | 485/18723 | 3.64e-08 | 1.21e-06 | 173 |
| GO:0030490 | Liver | Cirrhotic | maturation of SSU-rRNA | 24/4634 | 50/18723 | 3.06e-04 | 2.68e-03 | 24 |
| GO:0000462 | Liver | Cirrhotic | maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | 16/4634 | 37/18723 | 1.05e-02 | 4.65e-02 | 16 |
| GO:002261322 | Liver | HCC | ribonucleoprotein complex biogenesis | 355/7958 | 463/18723 | 7.76e-52 | 4.92e-48 | 355 |
| GO:004225422 | Liver | HCC | ribosome biogenesis | 246/7958 | 299/18723 | 4.99e-46 | 1.58e-42 | 246 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
| WDR46 | SNV | Missense_Mutation | c.1295N>T | p.Ala432Val | p.A432V | O15213 | protein_coding | tolerated(0.33) | benign(0.036) | TCGA-A2-A0YM-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| WDR46 | SNV | Missense_Mutation | rs775292869 | c.961G>A | p.Asp321Asn | p.D321N | O15213 | protein_coding | tolerated(0.35) | benign(0.003) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| WDR46 | SNV | Missense_Mutation | c.733N>G | p.Leu245Val | p.L245V | O15213 | protein_coding | deleterious(0.02) | probably_damaging(0.999) | TCGA-AR-A24S-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | anastrozole | SD | |
| WDR46 | SNV | Missense_Mutation | c.1405N>C | p.Gly469Arg | p.G469R | O15213 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-BH-A0BZ-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicin | CR | |
| WDR46 | SNV | Missense_Mutation | c.1697N>C | p.Val566Ala | p.V566A | O15213 | protein_coding | tolerated(0.41) | benign(0.05) | TCGA-BH-A1EN-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| WDR46 | insertion | Frame_Shift_Ins | novel | c.459_460insCAGAAAAAAAAAATAATAATAATCAA | p.Ala154GlnfsTer47 | p.A154Qfs*47 | O15213 | protein_coding | TCGA-A8-A093-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| WDR46 | SNV | Missense_Mutation | rs775969472 | c.694N>A | p.Glu232Lys | p.E232K | O15213 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| WDR46 | SNV | Missense_Mutation | c.241N>A | p.Glu81Lys | p.E81K | O15213 | protein_coding | tolerated(0.37) | benign(0.015) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
| WDR46 | SNV | Missense_Mutation | c.681N>T | p.Lys227Asn | p.K227N | O15213 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
| WDR46 | SNV | Missense_Mutation | rs750308051 | c.614N>A | p.Arg205Gln | p.R205Q | O15213 | protein_coding | deleterious(0.02) | benign(0.027) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 |
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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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