Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010833
Fusion event
HBV-SNCAIP 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
2200
Orient
+
Integrated sequence
ACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAAC| |TCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAG
Host Sequence
Chromosome
chr5
Cytoband
q23.2
Reference genome
End
121772053/122436358 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/3281642; hsa-mir-103a-1/Downstream/6661330;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/123906, chr5-CpG: 54/Downstream/338486
Upstream sequence
gctctgttgcccaggctagagtgcagtggcgcaatctcggctcactgccagctccgcctcccgggttcacgccattctcctgcctcagcctcccaagcag
Downstream sequence
atgtcggctGTTATCACTATTGAATCTCCTCCAACTTATTGTTTTTATTCCTATCAATATTATTCAGTTTACTTATTTTACCATTAGTAATGTATAGGAG
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.