Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005271
Fusion event
HBV-FARP2 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
1790
Orient
+
Integrated sequence
CGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCAT| |AAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTG
Host Sequence
Chromosome
chr2
Cytoband
q37.3
Reference genome
End
242387096/241447681 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-10b/Upstream/991592; hsa-mir-3133/Downstream/30224;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/90895, chr2-CpG: 182/Downstream/59921
Upstream sequence
TTTTTTCCACAGTCAGCCAAAACCACCCTGTAAATTACAGGGGAGGACGTGAACAAGAGACCCCTGCCCCAGAGTGCAACAGCTCTGCAGGTTCTGGGCA
Downstream sequence
AGGCTTTATTCCACTCTGAGCTTGAGTTTCCCATTTGGCCAACACGAGTTTCTGCTGCCTCCGTGGAATGTCCATGCCTCTCTAGCCCCACACACGCCTG
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).