Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005296
Fusion event
HBV-GHR 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
1800
Orient
+
Integrated sequence
GCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCT| |GTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGC
Host Sequence
Chromosome
chr5
Cytoband
p12
Reference genome
Start
End
42529173/42529071 (Hg38)
Orient
-
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/3971510; hsa-mir-103a-1/Downstream/11422433;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/104126, chr5-CpG: 47/Downstream/395041
Upstream sequence
ttagaacactgaaactaggcaatttataaagaaaaggaatttatttcttatggttatggaggcttggaagtcccaggttgagggagcacatctggtgagc
Downstream sequence
tgcaatcttggctcactgcaagctctgcctcccgggttcacgccattctcctgcctcagcctcccgagtagctggaactacaggtgcccaccacaatgcc
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).