Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005153
Fusion event
HBV-SND1 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
1826
Orient
+
Integrated sequence
GGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATT
Host Sequence
Chromosome
chr7
Cytoband
q32.1
Reference genome
End
127511158/127871105 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-877-3p ; hsa-mir-93-5p ; hsa-mir-16-5p ; hsa-mir-361-5p ; hsa-mir-6878-5p ; hsa-mir-198 ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-6770-5p ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-7113-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-6760-5p ; hsa-mir-4270 ; hsa-mir-6756-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5009-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-184
Nearest miRNA
hsa-mir-10525/Upstream/812921; hsa-mir-10399/Downstream/210756;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/218608, chr7-CpG: 213/Downstream/160000
Upstream sequence
AGTTCAAAAGACCCAGATAAGGTATGCAGAGCCCTGGGCTGGAAGTGAATTCAACAGTGATGATAACTATGGCTGTGGACAGGTAAAAATACAAAATTTC
Downstream sequence
cttgtcccactggaaggttttcagggggcaataatgtaaatggagctgtcatctcctatgataacaataccttcttctggataccccctgaaggatctac
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).