Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009586
Fusion event
HBV-GNA15 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|precore/core protein|
Start
1814
Orient
+
Integrated sequence
GACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCAC| |CATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGAC
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
Start
End
3152555/3152557 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1227/Upstream/521764; hsa-let-7e/Downstream/808857;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/29839, chr19-CpG: 27/Downstream/10286
Upstream sequence
GATGAAAAGGTGGTGATGGAGTCCTTTGGGACAGGTTGAGTCTGAGGGGCCTAGGGGGACTCCACCTTAGCTGGCAGACAGAGGTGGGAATGGCCAGTGC
Downstream sequence
AGCaccctaaccctaaccctaacccAGCAGAGCAATGGCCAATGTCAAAGGTCAGGAAAGgaaaggtcaagaatacagtgagaagaatgactctgggatt
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.