Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005314
Fusion event
HBV-TTBK1 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
1564
Orient
+
Integrated sequence
CGGGGCCGTTTGGGGCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTC| |ATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACT
Host Sequence
Chromosome
chr6
Cytoband
p21.1
Reference genome
Start
End
43242991/43275253 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-10398/Upstream/1541643; hsa-mir-10524/Downstream/159289;
Nearest CpG islands
chr6-CpG: 123/Target, None/Upstream, None/Downstream
Upstream sequence
TTAAATAAGAGCTAATTTTTTTAAACCAGTAAGAGTGATGTGATACGATACAACAGTTGAAATACAACTATTTTTTGCCAGTTGATTAAACCCATTCACT
Downstream sequence
ccacacagcgccccgcggcgccctgcaccccccgccggacttcggccccgccgcgctcccgccccaccccgccgccgaggcttcccctgggttcgcgtcc
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).