Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005506
Fusion event
HBV-TMED6 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
2709
Orient
-
Integrated sequence
AATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTG| |AACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCTGTGGAAGGCTGGCATTCTATATAAGAGAGAAACTACACGCAGCGCTTCATT
Host Sequence
Chromosome
chr16
Cytoband
q22.1
Reference genome
Start
End
69377263/69343360 (Hg38)
Orient
-
Location type
Promoter TMED6,exon
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1225/Upstream/1109861; hsa-mir-11401/Downstream/222448;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/3381, chr16-CpG: 74/Downstream/42265
Upstream sequence
TATGATTTTATTGCCATTTTGCTTTTTTAGATGTGTGCAGCAGACTAAAACATTAATGAGATAATTGATTTTTGTCCCATAACATTACAAAGCTGATTCG
Downstream sequence
ACTAAGCCCCAGAAGAAAACAGCCAGGGTGCTATAGTCACCTTAGCTTAGCATCTTGGCTTCTTTGTATCTGTAGTTGTTGGAACATTGAAGAGACGCTT
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).