Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005229
Fusion event
HBV-FCHSD2 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
1869
Orient
-
Integrated sequence
GTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGC| |CTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTC
Host Sequence
Chromosome
chr11
Cytoband
q13.4
Reference genome
Start
End
72574532/72863487 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-7159-3p ; hsa-mir-4668-5p ; hsa-mir-210-3p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-4272 ; hsa-mir-3613-3p ; hsa-mir-6074 ; hsa-mir-3622a-5p ; hsa-mir-548an ; hsa-mir-4482-3p ; hsa-mir-4474-5p ; hsa-mir-4662a-5p ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-449b-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-10392/Upstream/79895; hsa-let-7a-2/Downstream/1535750;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/40758, chr11-CpG: 192/Downstream/277644
Upstream sequence
ctataaaacttccagaagaaaacctaggagaaaatctttatgaccttggttttaggcaaagatttcttagctaccacaccaaaaatatgatccataaaag
Downstream sequence
aaaaattggtaggttggacttcattaaaattaaaaatttgtgctctttgaaaggtattaaggaaataaaaaaataagccacagactagaagaaaattgca
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).