Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008232
Fusion event
HBV-LAMA1 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
2202
Orient
+
Integrated sequence
TCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTC| |TTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGAC
Host Sequence
Chromosome
chr18
Cytoband
p11.31
Reference genome
Start
End
7085764/7085765 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-3976/Upstream/711340; hsa-mir-1-2/Downstream/3673819;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/74276, chr18-CpG: 148/Downstream/31088
Upstream sequence
cctcagcctcccaaagtgctgggattacaggcgtgagccaccgctcctggccTATTTTACCCTTAATCTTACCCATTCGCCCAAGTGAACATCTATAATT
Downstream sequence
TGATCAGAGAAGTCTGGTATTAGAAAGAAGCTACCCTGTTAATCAGCACTTTCTTTGAAACCTGGTAGTCACCTGACTGAGCAATAAAAACAGCACCTCT
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.