Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014026
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
X protein|Polymerase|
Start
1388
Orient
+
Integrated sequence
CGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATTATCGGGACTGATAACTCTGTTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGC| |TGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTC
Host Sequence
Chromosome
chr2
Cytoband
q13
Reference genome
End
109816058/109199602 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1285-2/Upstream/58014; hsa-mir-10b/Downstream/113969;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/69225, chr2-CpG: 246/Downstream/413727
Upstream sequence
ggaatgggatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaat
Downstream sequence
ggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaatggaat
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.