Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008808
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
X protein|
Start
1776
Orient
-
Integrated sequence
CAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACT| |AGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCA
Host Sequence
Chromosome
chr17
Cytoband
q12
Reference genome
Start
End
34900200/36544351 (Hg38)
Orient
+
Location type
upstream
Target gene
Nearest miRNA
hsa-mir-1180/Upstream/4194149; hsa-mir-10226/Downstream/489394;
Nearest CpG islands
chr17-CpG: 107/Target, None/Upstream, None/Downstream
Nearest cancer related gene
GGNBP2(TSG, No orient, 0)
Upstream sequence
GTAACGACAACCACAAGCTATCAGCACTTCACTATTTGCTGTCCCCTCAGCGGGATCGGGATGCAGCTACGCAGCGGGCCCCTGGCGAGCCGCGGTGTCA
Downstream sequence
GGGCCCTTTTCTCCTCTTCCCACCGTGGGAAGCGAATTCAGTGGCGTCAAGGGCCAAGAGCCAGACCTGAGTTTGTCTCTCACCCCCCGATGCTCGTCTC
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.