Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005577
Fusion event
HBV-DTX1 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
1778
Orient
+
Integrated sequence
AATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGA| |GGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCT
Host Sequence
Chromosome
chr12
Cytoband
q24.13
Reference genome
End
113500648/113062843 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-6809-3p ; hsa-mir-6818-3p ; hsa-mir-6888-3p ; hsa-mir-4753-3p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-6830-3p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-942-5p ; hsa-mir-3120-5p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-6849-3p
Nearest miRNA
hsa-let-7i/Upstream/367667; hsa-mir-1178/Downstream/96270;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/5114, chr12-CpG: 97/Downstream/14516
Upstream sequence
CAGCGGAAGAAAGCCCCGGTGTCAGGCTGGGGCCACAGGGGAGAAGCCAGGCTCTGGCCCCACAGGGGCTGCGGTTTGTTCAGCCGTGCCCCCTCACCTT
Downstream sequence
TCCCCTGCTGGGCTGTTTTCACTGCTCCCTGCAGGGGGTGAGGTTCCCTTTGAAGCCCTCCAGGTCCAGAGCCCAGAGTCTGGACTGGAAACTGGAGCCC
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).