Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005541
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
2714
Orient
+
Integrated sequence
AAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACAT| |GCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCTGTGGAAGGCTGGCATTCTATATAAGAGAGAAACTACACGCAGCGCTTCATTTTGTG
Host Sequence
Chromosome
chr11
Cytoband
q13.4
Reference genome
Start
End
72640295/72929250 (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/145658; hsa-let-7a-2/Downstream/1469987;
Nearest CpG islands
Upstream sequence
tttgctattgtgaataatgccgctataaacatacgtgtgcgtgtgtctttatagcagcatgatttataatcctttgggtatatacccagtaatgggatgg
Downstream sequence
ctaggtcaaatggtatttctagttctagatccctgaggaatAGAAGCCACTTTCAATGGAGATTAATCTTAAAATATCTTTTTCAGCTATCCAACACCCA
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).