Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005046
Fusion event
HBV-PHACTR1 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
1825
Orient
-
Integrated sequence
AGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAAT
Host Sequence
Chromosome
chr6
Cytoband
p24.1
Reference genome
Start
End
13129677/13129445 (Hg38)
Orient
+
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-3691/Upstream/2689651; hsa-mir-10398/Downstream/3012111;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/114474, chr6-CpG: 41/Downstream/198910
Upstream sequence
AAAGAATCAGTATCAAAACAAATAAATTACATGCAATAACAGCTTCTATTCTTCCTTCAGCAGCACTTGTGAGGAAGCCTTTGGTCCGTATCACATGTGG
Downstream sequence
aggtaaaggagtagaaaaagatattccatgcaaatggaaatcaaaagtgatcaggagtagctattcttgtatcagacaaaacagactttaaagcaacaac
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).