Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004859
Fusion event
HBV-CWF19L1 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
1811
Orient
+
Integrated sequence
AGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCA| |CCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGA
Host Sequence
Chromosome
chr10
Cytoband
q24.31
Reference genome
End
102004284/100244527 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-4668-5p ; hsa-mir-3613-3p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-6131 ; hsa-mir-4755-3p ; hsa-mir-3663-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-1306-5p ; hsa-mir-4781-3p ; hsa-mir-483-3p ; hsa-mir-1228-3p ; hsa-mir-640 ; hsa-mir-6747-3p ; hsa-mir-4716-5p
Nearest miRNA
hsa-mir-107/Upstream/1319959; hsa-mir-1307/Downstream/730458;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/14751, chr10-CpG: 32/Downstream/22815
Upstream sequence
tcactgcaagctccgcctcccaggttcatgccattctcctgcctcagcctcctaagtagctgggactacgggcgtctgccaccacgcctggttaattttt
Downstream sequence
tctatttttagtacagacggggtttcaccgtgttagccaggatggtctcgatctcctgacctcatgatccgcccacctcggcctcccaaagtgctgggat
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).