Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005721
Fusion event
HBV-TXNL4B 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
2028
Orient
-
Integrated sequence
GAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGACACCGCCTCTGCTCTGTATCGGGAGGCCTTAGA| |GTCTCCGGAACATTGTTCACCTCACCATACAGCACTCAGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTGGCCACCTGGGTGGGAAGTAATTTG
Host Sequence
Chromosome
chr16
Cytoband
q22.2
Reference genome
Start
End
72095215/72061316 (Hg38)
Orient
-
Location type
Promoter
Target gene
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-6803-5p ; hsa-mir-6751-5p ; hsa-mir-6867-5p ; hsa-mir-4472 ; hsa-mir-4447 ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-6835-5p ; hsa-mir-8064 ; hsa-mir-4643 ; hsa-mir-8485 ; hsa-mir-3622b-5p ; hsa-mir-3689d ; hsa-mir-4327 ; hsa-mir-4459 ; hsa-mir-4537 ; hsa-mir-455-3p ; hsa-mir-4633-3p ; hsa-mir-5197-5p ; hsa-mir-6134 ; hsa-mir-6499-3p ; hsa-mir-6500-5p ; hsa-mir-6516-5p ; hsa-mir-665 ; hsa-mir-6840-3p ; hsa-mir-6851-5p ; hsa-mir-6874-5p ; hsa-mir-6880-5p
Nearest miRNA
hsa-mir-1225/Upstream/2030894; hsa-mir-11401/Downstream/4807620;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/52327, chr16-CpG: 15/Downstream/31914
Upstream sequence
ACTGATTGAGTGCCTATTGAATGCTAGGTCCCAGAAAGTTAactgttgtccttgttttacagacaaggaaacagagactcagagatggtaagtgagttgc
Downstream sequence
ttaaggttacatagctatgaaacagggaagcagaactttgaacccaggtctgtttgatacaaactcagaggtcctttcactgcatgctgttgcctcctcA
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).