Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008113
Fusion event
HBV-RTN1 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
X protein|
Start
1806
Orient
-
Integrated sequence
ACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGC| |ACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGG
Host Sequence
Chromosome
chr14
Cytoband
q23.1
Reference genome
Start
End
60324052/59857334 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-208a/Upstream/210314; hsa-mir-1185-1/Downstream/791314;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/129750, chr14-CpG: 72/Downstream/12899
Upstream sequence
GTCCCTGGTCCTCTGTCCTTTCCATACTACATAATCTCTATGGCTTCTCTTCTAATTttctaaatccatatcaacaatcctgttgtcacctacaaaatcc
Downstream sequence
atttctttatctacagttgccaagtagaaatttccattcaaatggcttgtcattatttcaagcctcatatgactaaaagtgaattcattatcctctctcc
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.