Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008809
Fusion event
HBV-GGNBP2 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
Polymerase|large S protein|
Start
2960
Orient
+
Integrated sequence
TCTTTCCACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACCGCAAATCCAGATTGGGACTTCAATCCCAAC| |AAGGACACCTGGCCAGACGCCAACAAGGTAGGAGCTGGAGCATTCGGGCTGGGTTTCACCCCACCGCACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTC
Host Sequence
Chromosome
chr17
Cytoband
q12
Reference genome
Start
End
34900224/36544375 (Hg38)
Orient
-
Location type
upstream
Target gene
Nearest miRNA
hsa-mir-1180/Upstream/4194173; hsa-mir-10226/Downstream/489370;
Nearest CpG islands
chr17-CpG: 107/Target, None/Upstream, None/Downstream
Nearest cancer related gene
GGNBP2(TSG, No orient, 0)
Upstream sequence
CACTTCACTATTTGCTGTCCCCTCAGCGGGATCGGGATGCAGCTACGCAGCGGGCCCCTGGCGAGCCGCGGTGTCAGGGCCCTTTTCTCCTCTTCCCACC
Downstream sequence
GTGGGAAGCGAATTCAGTGGCGTCAAGGGCCAAGAGCCAGACCTGAGTTTGTCTCTCACCCCCCGATGCTCGTCTCCCTTTTCTCACTGCCTTCCGCCCC
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.