Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012256
Fusion event
HBV-CNTNAP4 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
1782
Orient
-
Integrated sequence
TGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGG| |CTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGT
Host Sequence
Chromosome
chr16
Cytoband
q23.1
Reference genome
Start
End
76419922/76386025 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1225/Upstream/6355603; hsa-mir-11401/Downstream/482911;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/150730, chr16-CpG: 34/Downstream/248913
Upstream sequence
cattttaaacagggaaatcaccaaaaaatgcacaaaaatgtgaaaaatgaatagataatgaaaaaaaacacttgtttacagtattgtagctgaaacagga
Downstream sequence
aggcagagtgccaccttgtttgaactcagttggaagcaggtacgttgggcagcccagagtcttcactgctgtgggcacattcacaaatgaccactgaagc
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.