Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008722
Fusion event
HBV-PDE6C 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|
Start
1330
Orient
+
Integrated sequence
AGCGCATGCGTGGAACCTTTTCGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCCGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATTATCGG| |GACTGATAACTCTGTTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTAC
Host Sequence
Chromosome
chr10
Cytoband
q23.33
Reference genome
Start
End
95414422/93654665 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-107/Upstream/4061838; hsa-mir-1287/Downstream/2409650;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/53035, chr10-CpG: 33/Downstream/47738
Upstream sequence
ACTTCTCTCTTTATATAGTTTGATAGACTATCTCCTCTTTCTTTCCAGTGGAGTTTTTCTGTATTTTGTAACTGTCAAATTCATTTGGCAAAATCACTAT
Downstream sequence
CTATCTGTCATTTGGCCTGTATGACTAAAATGGTCTATTTGGAATAACTGGGCTTTAAGAAACCACCCCCAGCTTATATACTCATtttctttctttcttt
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.