Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005880
Fusion event
HBV-NID1 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
3215
Orient
+
Integrated sequence
CAGCGCCTCCTCCTGCCTCCACCAATCGGCAGTCAGGAAGACAGCCTACTCCCATCTCTCCACCTCTAAGAGACAGTCATCCTCAGGCCATGCAGTGGAA| |
Host Sequence
Chromosome
chr1
Cytoband
q42.3
Reference genome
End
236168952/236005652 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-29b-3p ; hsa-mir-106b-5p ; hsa-mir-186-5p ; hsa-mir-6760-5p ; hsa-mir-423-5p ; hsa-mir-3151-5p ; hsa-mir-92a-2-5p ; hsa-mir-486-3p ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-6770-5p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-6856-5p ; hsa-mir-4768-3p ; hsa-mir-6758-5p ; hsa-mir-192-5p ; hsa-mir-215-5p
Nearest miRNA
hsa-mir-101-1/Upstream/152592; hsa-mir-3123/Downstream/1465467;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/11681, chr1-CpG: 132/Downstream/58730
Junction sequence
GTGGAATGTTGTGGAG
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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).