| Basic Information ▶ | |
| VISDB ID | TVIS20031815 |
|---|---|
| Fusion Name | HPV-TWSG1-DT integration |
| Validated | No |
| Curated Way | Curated |
| Method | High-throughput Viral Integration Detection method |
| Wet Assay | Yes |
| Sample ID | - |
| Sample Name | S106 |
| Sample Type | Tumor |
| Age | 57 = 59; >57 = 50 |
| Gender | - |
| Disease Information ▶ | |
| Disease Name | Oropharyngeal squamous cell carcinoma |
| Disease Abbreviation | OPSCC |
| Cancer | Yes |
| Literature ▶ | |
| PubMed ID | 38279874 |
| Journal | Clinical and Translational Medicine |
| Published Year | 2024 |
| Human Genome ▶ | |
| Human Genome Version Description | GRCh37/hg19 |
| Human Genome RefSeq Accession | GCF_000001405.13 |
| Human Chromosome | chr18 |
| Cytogenetic Band | p11.22 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | 9302665 |
| Hg19 End | 9302665 |
| Hg38 Start | 9302667 |
| Hg38 End | 9302667 |
| Junction Sequence | GTATGTTGAATTAGTGTTGTTTGTTGTTTATATGTTTGTATGTGCTTGTATGTGCTTGTAAATATTAAGTTGTAAGATGTATACTATAAATGTTAGAGCAGTCACTCAAGAAATGTATGCTGAGATGAAAGAAGAGATGGC |
| Target Gene ▶ | |
| Target Gene | TWSG1-DT |
| Nearby Gene | - |
| Distance | - |
| Virus Information ▶ | |
| Virus Name | Human Papillomavirus |
| Virus Subtype Name | HPV16 |
| Virus Genome Accession | AF125673 |
| TaxonomyID | 10566 |
| Virus Abbreviation | HPV |
| Virus Genome | Human papillomavirus type 16 isolate 16W12E, complete genome |
| Virus Genome Length | 7904 bp |
| Virus Breakpoint1 | 7236 |
| Virus Breakpoint2 | - |
| Virus Gene Name | HpV16gp8_L1//downstream |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Gene Id | ENSG00000264964.3 |
| Gene Name | TWSG1-DT |
| Region | intron |
| Impact | intronic_insertion |
| Transcript | Transcript 1: ENST00000822310.1, Transcript 2: ENST00000822312.1, Transcript 3: ENST00000822311.1, Transcript 4: ENST00000822314.1, Transcript 5: ENST00000822313.1, Transcript 6: ENST00000822318.1, Transcript 7: ENST00000822317.1, Transcript 8: ENST00000822315.1, Transcript 9: ENST00000822316.1, Transcript 10: ENST00000822319.1 |
| AlphaGenome Analysis | |
| Window | chr18:9237131-9368203 |
| RNA-seq Change (±2kb) | Mean: 2.6908843210549094e-05 | Peak: 0.04254150390625 |
| ATAC Change (±2kb) | Mean: 0.0002007591538131237 | Peak: 0.9449005126953125 |
| Interpretation | RNA-seq: no signal in region (REF≈0, ALT≈0) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change 1.5% |
| Visualization | |
Center for Precision Health
McWilliams School of Biomedical Informatics at UTHealth Houston
7000 Fannin Street, Suite 600, Houston, TX 77030
Email: Zhongming Zhao, Ph.D