Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005936
Fusion event
HBV-EDEM3 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
1767
Orient
+
Integrated sequence
GGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCT| |TTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAA
Host Sequence
Chromosome
chr1
Cytoband
q25.3
Reference genome
End
184721137/184752003 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-155-5p ; hsa-mir-335-5p ; hsa-mir-142-3p ; hsa-mir-4699-3p ; hsa-mir-412-3p ; hsa-mir-2054 ; hsa-mir-6754-3p ; hsa-mir-218-5p ; hsa-mir-4474-3p ; hsa-mir-7108-5p ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-891a-3p ; hsa-mir-3688-5p ; hsa-mir-4732-5p ; hsa-mir-6832-5p ; hsa-mir-548au-3p ; hsa-mir-449b-5p ; hsa-mir-449a ; hsa-mir-34c-5p ; hsa-mir-34a-5p ; hsa-mir-3668 ; hsa-mir-5697 ; hsa-mir-3646 ; hsa-mir-1252-3p ; hsa-mir-6798-3p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-520f-5p ; hsa-mir-4640-3p ; hsa-mir-1307-5p ; hsa-mir-10a-3p ; hsa-mir-4282 ; hsa-mir-424-3p ; hsa-mir-548ad-3p ; hsa-mir-4799-5p ; hsa-mir-6727-5p ; hsa-mir-6792-5p ; hsa-mir-505-3p ; hsa-mir-202-3p ; hsa-mir-7162-3p ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-4274 ; hsa-mir-6502-3p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7a-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-mir-98-5p ; hsa-mir-3529-5p ; hsa-mir-379-5p ; hsa-mir-4420 ; hsa-mir-181b-3p ; hsa-mir-181b-2-3p ; hsa-mir-299-5p ; hsa-mir-6815-3p ; hsa-mir-7153-5p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-539-5p ; hsa-mir-4251 ; hsa-mir-1304-3p ; hsa-mir-892b ; hsa-mir-6782-3p ; hsa-mir-6757-3p ; hsa-mir-5692a ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-101-1/Upstream/4313613; hsa-mir-1182/Downstream/7964325;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/87474, chr1-CpG: 116/Downstream/2115
Upstream sequence
ccaccacacctggctaattttgtgtttttagtagagaaggggtttctccatgttggtcaggctggtctcgaactcccgacctcaggtgattcgcccgcct
Downstream sequence
cagcctcccaaagtgctgggattacaggcatgagccaccatgccaggccAAGTCGGCTTTTTCTAAAGTTACGTCTCCTGCCCACGTGCTATAGAAACTG
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).