Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009436
Fusion event
HBV-SPOCK1 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|
Start
3074
Orient
-
Integrated sequence
AGACGCCAACAAGGTAGGAGCTGGAGCATTCGGGCTGGGTTTCACCCCACCGCACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTCAGGGCATACTACAA| |ACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGCCA
Host Sequence
Chromosome
chr5
Cytoband
q31.2
Reference genome
End
136444302/137108613 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/1305538; hsa-mir-103a-1/Downstream/538959;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/751259, chr5-CpG: 134/Downstream/389714
Upstream sequence
TCTATTTTACTACTGCAAGCAACAAATCACTTTAAATTAGGAAAAAAATTGACTATAAGAAATGACATAGTATCTGGCAAAATTGAAAATTTTTCTTCAG
Downstream sequence
GAGAAGAATATTACAACCTTTGGTAAGATGGCTTTAGACATCTTCTTCTGCCCCAGGAAAAGGGTTAAGCAGGTCTGGGAAACTGAGAAGCTGGTCAGGC
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.