Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005922
Fusion event
HBV-ADAM22 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
2498
Orient
-
Integrated sequence
AGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCT| |TCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCC
Host Sequence
Chromosome
chr7
Cytoband
q21.12
Reference genome
Start
End
87671590/88042275 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-539-5p ; hsa-mir-451b ; hsa-mir-624-5p ; hsa-mir-5581-3p ; hsa-mir-5701 ; hsa-mir-4716-5p ; hsa-mir-6782-3p ; hsa-mir-770-5p ; hsa-mir-4712-5p ; hsa-mir-3148 ; hsa-mir-33b-3p ; hsa-mir-3692-5p ; hsa-mir-371a-3p ; hsa-mir-371b-3p ; hsa-mir-4704-5p ; hsa-mir-515-3p ; hsa-mir-519e-3p ; hsa-mir-5580-5p ; hsa-mir-570-3p ; hsa-mir-6080 ; hsa-mir-6124
Nearest miRNA
hsa-mir-10525/Upstream/12127006; hsa-mir-10399/Downstream/4161740;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/107019, chr7-CpG: 59/Downstream/177413
Upstream sequence
ataggccttagtccttgatgacttctttgagcagttgccagccgactacagtccacctactgctagactttttattatgtaaggaaattaaactctgatc
Downstream sequence
TTATAAATTTTCCAAATATGGTGTGTTAGCTAGAGCATCTTGTAGGGAGGAAAAATGTGAGAAGTGAACTTTGGTTTCATTTTCAAATTGGTGGATTATG
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).