Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005890
Fusion event
HBV-AGAP2 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
1826
Orient
+
Integrated sequence
GGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATT
Host Sequence
Chromosome
chr12
Cytoband
q14.1
Reference genome
Start
End
58129823/57736040 (Hg38)
Orient
+
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-1228/Upstream/216781; hsa-let-7i/Downstream/12578;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/8272, chr12-CpG: 42/Downstream/5
Nearest cancer related gene
AGAP2(OG, No orient, 0)
Upstream sequence
CCCCTCCCCACAGCCCAAGGGAAAGAGCTAGGATTTTCCTATGCCTCCATCTCCCACACCCTCCCCACAAACGCCCTCCAAAAGAACTGTGGGGAAGGGC
Downstream sequence
TCCATCGCCTGGCCGAGAGAAGCCACAGGCCCGGGGGAAAGGATGCTCCTTCCGCCAGCCAGGTCCAGCCCCCGCGCCTGACACCGGCCGGACGTTCCCG
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).