| Basic Information ▶ | |
| VISDB ID | TVIS20024192 |
|---|---|
| Fusion Name | HPV-LINC01198 integration |
| Validated | No |
| Curated Way | Curated |
| Method | EBV capture sequencing, followed by Viral Integration Pathway Analysis (VIPA) pipeline |
| Wet Assay | No |
| Sample ID | SRR4003661.1 |
| Sample Name | SRA315538 |
| Sample Type | Tumor |
| Age | - |
| Gender | - |
| Disease Information ▶ | |
| Disease Name | Cervical cancer |
| Disease Abbreviation | CC |
| Cancer | Yes |
| Literature ▶ | |
| PubMed ID | 35968887 |
| Journal | Clinical and Translational Medicine |
| Published Year | 2022 |
| Human Genome ▶ | |
| Human Genome Version Description | GRCh38/hg38 |
| Human Genome RefSeq Accession | GCF_000001405.40 |
| Human Chromosome | chr13 |
| Cytogenetic Band | q14.13 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | - |
| Hg19 End | - |
| Hg38 Start | 46525708 |
| Hg38 End | 46525708 |
| Junction Sequence | aggtcaggaaaacagggattTGGCACGCATGGCAAGCAGGAAACGTACAAGTTTAAACTATAGTTGCTGACATAGCATCTGTACTCAAAGTGTTCTCCAATGAACAGGATCTTAAAGCTttctctccagg |
| Target Gene ▶ | |
| Target Gene | LINC01198 |
| Nearby Gene | - |
| Distance | - |
| Virus Information ▶ | |
| Virus Name | Human Papillomavirus |
| Virus Subtype Name | HPV16 |
| Virus Genome Accession | K02718 |
| TaxonomyID | 10566 |
| Virus Abbreviation | HPV |
| Virus Genome | Human papillomavirus type 16 (HPV16), complete genome |
| Virus Genome Length | 7,904 bp |
| Virus Breakpoint1 | 7502 |
| Virus Breakpoint2 | - |
| Virus Gene Name | NA |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Gene Id | ENSG00000231817.10 |
| Gene Name | LINC01198 |
| Region | intron |
| Impact | intronic_insertion |
| Transcript | Transcript 1: ENST00000781180.1 |
| AlphaGenome Analysis | |
| Window | chr13:46460172-46591244 |
| RNA-seq Change (±2kb) | Mean: -3.3661035558907315e-06 | Peak: 0.0108642578125 |
| ATAC Change (±2kb) | Mean: 0.0005925006698817015 | Peak: 6.999997138977051 |
| 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