Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005612
Fusion event
HBV-DCAF16 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
968
Orient
-
Integrated sequence
TTAACTTCATGGGATATGTAATTGGAAGTTGGGGTACTTTACCACAGGAACATATTGTACGGAAACTCAAGCAATGTTTTCGAAAACTGCCTGTAAATAG| |ACCTATTGATTGGAAAGTATGTCAAAGAATTGTGGGTCTTTTGGGCTTTGCTGCCCCTTTTACACAATGTGGCTATCCTGCCTTGATGCCTTTATATGCA
Host Sequence
Chromosome
chr4
Cytoband
p15.31
Reference genome
Start
End
17800625/17799002 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-26b-5p ; hsa-mir-186-5p ; hsa-mir-92a-3p ; hsa-mir-7856-5p ; hsa-mir-3674 ; hsa-mir-4775 ; hsa-mir-6069 ; hsa-mir-4999-5p ; hsa-mir-4718 ; hsa-mir-1537-5p ; hsa-mir-1295b-3p ; hsa-mir-1244 ; hsa-mir-624-5p ; hsa-mir-590-3p ; hsa-mir-29b-2-5p ; hsa-mir-2110 ; hsa-mir-299-5p ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-4731-5p ; hsa-mir-4480 ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-1207-3p ; hsa-mir-506-5p ; hsa-mir-892c-5p ; hsa-mir-22-3p ; hsa-mir-320e ; hsa-mir-6818-3p ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-3613-3p ; hsa-mir-575 ; hsa-mir-4676-5p ; hsa-mir-6858-3p ; hsa-mir-548c-3p ; hsa-mir-215-3p ; hsa-mir-216a-5p ; hsa-mir-216b-5p ; hsa-mir-3135b ; hsa-mir-3652 ; hsa-mir-4430 ; hsa-mir-500b-3p ; hsa-mir-5693 ; hsa-mir-6773-3p ; hsa-mir-6879-3p
Nearest miRNA
hsa-mir-12113/Upstream/4171045; hsa-mir-12115/Downstream/2729273;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/17001, chr4-CpG: 107/Downstream/11329
Upstream sequence
CGCGATACTAAGGACTTGACTCAAGTGAACAATAATCTGTGGACAGCGGGTGTGAACCCGAGCTGGGCCAACACCTCATCAGACCGAATGGCTAATTGAT
Downstream sequence
ACTCATGAAGTCTGAGAAGTTATCCATACTTCTCAGGCTGTTCTATATGTCCTAGCTACCTGAGCAAAACACTTTTGGCCCTGATCTTTGTGCCACTACC
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).