Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011795
Fusion event
HBV-CLSTN2 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
Polymerase|large S protein|middle S protein|
Start
20
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCA| |AACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCG
Host Sequence
Chromosome
chr3
Cytoband
q23
Reference genome
End
139756008/140037166 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-3180-5p ; hsa-mir-3607-3p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-10b-3p ; hsa-mir-1343-5p ; hsa-mir-145-3p ; hsa-mir-1914-5p ; hsa-mir-3150a-3p ; hsa-mir-3175 ; hsa-mir-4434 ; hsa-mir-4516 ; hsa-mir-5703 ; hsa-mir-6763-5p ; hsa-mir-6825-5p ; hsa-mir-6878-5p ; hsa-mir-7152-5p ; hsa-mir-939-5p
Nearest miRNA
hsa-let-7g/Upstream/5599260; hsa-mir-1224/Downstream/11528710;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/100893, chr3-CpG: 37/Downstream/645451
Upstream sequence
caggagttcgagaccaggctggccaacatggtgaaaccctgtctctactaaaaatacacacacacaaaattagccaggcgtggtgatgggcacctgtaat
Downstream sequence
TTTTGAGCCCGGAAACTTTCAAACATGCATAAAAACACAGAACATGGTAACAACCCTTTATGTACCTATTACCCAGACCCAACACCTACCACAGAGCAat
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.