Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008222
Fusion event
HBV-NEK5 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
S protein|Polymerase|large S protein|middle S protein|
Start
203
Orient
-
Integrated sequence
CTGCCTCTCCCTTATCGTCAATCTTCTCGAGGATTGGGGACCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACA| |GGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTT
Host Sequence
Chromosome
chr13
Cytoband
q14.3
Reference genome
Start
End
52699507/52125371 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-15a/Upstream/572704; hsa-mir-1267/Downstream/684679;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/112940, chr13-CpG: 63/Downstream/3266
Upstream sequence
cataGATGTTGGATgggtgtggtggctcatgcctgtaatcccagcactttgggaggccgaggcgggtggatcacgaagtcaggagattgagaccatccta
Downstream sequence
gctaacacagtgaaaccccgtctctactaaaaatacaaaaaattagccaggcgtggtggcgggcgcctgtagtcccagctactcgggaggctgaggcagg
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.