Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005702
Fusion event
HBV-RBP4 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
1657
Orient
+
Integrated sequence
CCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAA| |GAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGG
Host Sequence
Chromosome
chr10
Cytoband
q23.33
Reference genome
Start
End
95358056/93598299 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-107/Upstream/4005472; hsa-mir-1287/Downstream/2466016;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/30948, chr10-CpG: 106/Downstream/2333
Upstream sequence
attTCACGACCAGGGAGATAACTAAGCAGCCatcatatcaaacacttacaaagaactcatgtctcaggcactgttctgagtgctttctgcctgttgactc
Downstream sequence
attgcatcttgtaacacaactctatgaggtaggttctatgatcgtttcactttgcagatgacgaaataggcacagagaagtgaaggaacatatctaaagt
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).