Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005524
Fusion event
HBV-ADH1B 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
174
Orient
-
Integrated sequence
CCGGAACAGTAAACCCTGTTCCGACTACTGCCTCACCCATATCGTCAATCTTCTCGAGGACTGGGGACCCTGCACAGAACATGGAGAGCACAACATCAGG| |ATTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCACAGAGTCTAGACTCGTGGTGGACTTCTCTCAAT
Host Sequence
Chromosome
chr4
Cytoband
q23
Reference genome
End
100237641/99316484 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4758-3p ; hsa-mir-3189-5p ; hsa-mir-5699-5p ; hsa-mir-5011-5p ; hsa-mir-4280 ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-4705 ; hsa-mir-4666a-3p ; hsa-mir-5580-3p ; hsa-mir-34b-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-3149 ; hsa-mir-297 ; hsa-mir-568 ; hsa-mir-3924 ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-511-3p
Nearest miRNA
hsa-mir-12113/Upstream/319024; hsa-mir-1243/Downstream/1924311;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/227506, chr4-CpG: 40/Downstream/247086
Upstream sequence
TTTGAATTTGACTGAAATACTACACAATTGCAAACAGATTTACATAAATAGTCAATGTTTCCTGTGTAGAGGATGGATAATGCAACAAACATGTAAAATG
Downstream sequence
AAGTGCCTGAGGATTCCTACTGAGAAATCGCAAATGTGGGAGACCACACAGATTAAAAAAATTACTTCCACTGTACTAATAGTTAACTTTTACACAGTGT
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).