Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012206
Fusion event
HBV-LMO1 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|
Start
1800
Orient
-
Integrated sequence
AGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |CTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG
Host Sequence
Chromosome
chr11
Cytoband
p15.4
Reference genome
Start
End
8258068/8236521 (Hg38)
Orient
+
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-210/Upstream/1001684; hsa-let-7a-2/Downstream/853791;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/67397, chr11-CpG: 107/Downstream/26034
Nearest cancer related gene
LMO1(OG, No orient, 0)
Upstream sequence
tctcgaactcctgggctcaagcaatcctcccacctcaacttcccaaagtgctggggttagtaggagaaagagctggcctgtgaaccctggcagtctatct
Downstream sequence
ctagggccaaagtactggactcatgtgctgtgctgCAGGGCTGCATGCTGAGGGGGGCTGAGACCCAAGCAGGAGACTTCACAGAGCTTAGAAGACACAC
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.