Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011256
Fusion event
HBV-DCLK1 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|precore/core protein|
Start
1819
Orient
+
Integrated sequence
TTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGC| |AACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTA
Host Sequence
Chromosome
chr13
Cytoband
q13.3
Reference genome
Start
End
36639674/36065537 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-2276/Upstream/11903033; hsa-mir-1267/Downstream/3598497;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/586555, chr13-CpG: 75/Downstream/65366
Upstream sequence
ACTGATGTGGAGATCCAAGGCCTCTTAGCTTTTAAGAACCTATCTATATTTTCATATGATATATTTCAATATCCATCACAATCTCCAGCATCCCACCCCA
Downstream sequence
AATGTAAGAAATATGTCTGACAAAAGAATTACTTTGATAGAGTAAATAGTAGAGGTTTAAACCCTCTTATCTctagaactataggaattgaacctaaccc
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.