Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005327
Fusion event
HBV-GPC2 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
1383
Orient
+
Integrated sequence
AGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCAAAACTTATCGGGACTGACAACTCTGTTGTCCTCTCTCGGAAATACACCTCCTTCCCATGGCTGCTC| |GGGTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGGCTCT
Host Sequence
Chromosome
chr7
Cytoband
q22.1
Reference genome
End
99768198/100170575 (Hg38)
Orient
+
Location type
Promoter GPC2,intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-10525/Upstream/13906; hsa-mir-10399/Downstream/186076;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/11739, chr7-CpG: 70/Downstream/686
Upstream sequence
CTGAGGTGTGTTTGGCATGAACTACCTAGTCCTCCCAGAACTACTCTAGTCCTTCCAGTTTATTATACTGATATGCTCAGGAGTAATCATCACTTAATAG
Downstream sequence
gaggaaagggagggagacacaggtggatgccgggttggggaagggagaaagaccatgagtgacaggaaggcagggagagaaggaaggagagagaTCCGAC
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).