Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009829
Fusion event
HBV-SH3RF3 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
2053
Orient
+
Integrated sequence
TTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTC| |ACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCT
Host Sequence
Chromosome
chr2
Cytoband
q13
Reference genome
End
109816211/109199755 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1285-2/Upstream/58167; hsa-mir-10b/Downstream/113816;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/69378, chr2-CpG: 246/Downstream/413574
Upstream sequence
atggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatgga
Downstream sequence
atggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaaATAA
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.