Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006187
Fusion event
HBV-MYLK 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
1798
Orient
+
Integrated sequence
AGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |CTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG
Host Sequence
Chromosome
chr3
Cytoband
q21.1
Reference genome
End
123451457/123732610 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-155-5p ; hsa-mir-9-5p ; hsa-mir-4276 ; hsa-mir-3682-3p ; hsa-mir-5190 ; hsa-mir-4717-3p ; hsa-mir-1272 ; hsa-mir-5094 ; hsa-mir-513b-3p ; hsa-mir-136-3p ; hsa-mir-587 ; hsa-mir-6077 ; hsa-mir-5581-3p ; hsa-mir-7-5p ; hsa-mir-490-5p ; hsa-mir-4328 ; hsa-mir-5047 ; hsa-mir-1301-3p ; hsa-mir-7156-3p ; hsa-mir-4684-3p ; hsa-mir-4252 ; hsa-mir-7153-5p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-589-5p ; hsa-mir-4251 ; hsa-mir-181a-2-3p ; hsa-mir-4691-3p ; hsa-mir-8063 ; hsa-mir-18a-5p ; hsa-mir-200c-3p
Nearest miRNA
hsa-let-7g/Upstream/570731; hsa-mir-12124/Downstream/400319;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/147239, chr3-CpG: 34/Downstream/151699
Upstream sequence
gcctgatcaacactttttaataaaatcacaatatctactgctgaattttggagggaaccaattcaaatcatagcaCACATCTTTTCTAAAATGGAAAGGG
Downstream sequence
GGCACTATTCAAACAGCTGAGGGACCTAGGAAAGGTAGCTGTCAGTTGGGCTGGGTGTGGGGCCATGCATGTTTATTTTGAGGTGATTCTGATGTGAACT
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).