Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010716
Fusion event
HBV-SAFB2 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|
Start
1361
Orient
-
Integrated sequence
GCCGATCCATACTGCGGAACTCCTAGCCGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATTATCGGGACTGATAACTCTGTTGTCCTATCCCGCAAA| |TATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACC
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
Start
End
5595493/5595482 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1227/Upstream/662742; hsa-let-7e/Downstream/794156;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1299, chr19-CpG: 173/Downstream/26755
Nearest cancer related gene
SAFB2(TSG, No orient, 0)
Upstream sequence
TCTCCCGTTCCCGCTGCCTCTGGCGCTCTCTCTCCCTTTGTTCTTTGATTTTATCAAACGACAAGATGTCTCTCTTTTCTTTGCTTTCTGACTTGCGATC
Downstream sequence
CTGACTCTTGGAGCTCTGTTTACCAAAACTGGTTTATTAATGTCAGGAAAATGATTGCAACAAACAAACAATGGAGATTATGCACGTGTGCATGAGACTA
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.