Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010717
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
precore/core protein|Core and e antigen|
Start
2071
Orient
+
Integrated sequence
TTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGC| |AAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAA
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
Start
End
5595494/5595483 (Hg38)
Orient
-
Location type
Exonic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1227/Upstream/662743; hsa-let-7e/Downstream/794155;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1300, chr19-CpG: 173/Downstream/26754
Nearest cancer related gene
SAFB2(TSG, No orient, 0)
Upstream sequence
CTCCCGTTCCCGCTGCCTCTGGCGCTCTCTCTCCCTTTGTTCTTTGATTTTATCAAACGACAAGATGTCTCTCTTTTCTTTGCTTTCTGACTTGCGATCC
Downstream sequence
TGACTCTTGGAGCTCTGTTTACCAAAACTGGTTTATTAATGTCAGGAAAATGATTGCAACAAACAAACAATGGAGATTATGCACGTGTGCATGAGACTAA
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.