Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005696
Fusion event
HBV-SYTL1 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
1384
Orient
+
Integrated sequence
GCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCAAAACTTATCGGGACTGACAACTCTGTTGTCCTCTCTCGGAAATACACCTCCTTCCCATGGCTGCTCG| |GGTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGGCTCTA
Host Sequence
Chromosome
chr1
Cytoband
p36.11
Reference genome
Start
End
27670651/27344160 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-12136/Upstream/789567; hsa-mir-101-1/Downstream/3394996;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/21645, chr1-CpG: 168/Downstream/5268
Upstream sequence
gctggaattacaggcatgtaccaccatgcccagctaattgttctgttcttttcattttttttggaggagtttcactctttttgcccaggctggagtgcaa
Downstream sequence
tggtgtgatctcggtttaccataacctctgcctcccagtttcaagcaattctcccacctcagcctcccgagtagctgggattaaaggcatgcaccaccat
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).