Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011700
Fusion event
HBV-KCNAB2 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
1750
Orient
-
Integrated sequence
CTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAG| |GAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTG
Host Sequence
Chromosome
chr1
Cytoband
p36.31
Reference genome
Start
End
6122149/6062089 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12136/Upstream/199348; hsa-mir-101-1/Downstream/367745;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/10313, chr1-CpG: 34/Downstream/9486
Upstream sequence
GGCAAAGAATAAACCCACTGATTGCTTAGAAGTCCAGTGTCAgccaagcgcggtggctcacgcctgtaatcccagcattttagaagcccaaggcaggcgg
Downstream sequence
atcgcctgaggtcgggagttcaagaccagcctgaccaacatggagaaactctgtctctactaaaaatacaaaaaattagccgagcgcggtggcacatgcc
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.