Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015249
Fusion event
HBV-VWDE integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp1 Polymerase;HBVgp3 X protein
Start
1577
Orient
-
Integrated sequence
GGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGAC| |CGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTC
Host Sequence
Chromosome
chr7
Cytoband
p21.3
Reference genome
Start
End
12427042/12387416 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-339/Upstream/5320371; hsa-mir-10399/Downstream/5739804;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/175828, chr7-CpG: 45/Downstream/16121
Upstream sequence
TTTTGGCCAGTTATTTGTTCACTTTTAAAGTTCCCAAGCAGACTTCTTTCATAATGCTTCAGATACTTGATTATGCATATAAAAATATCTAGAACAATAT
Downstream sequence
AGAGATTTCTGAGAATGCTAGAAATTTAAAGGAATCAATTTTTCTAATAATACTGGTTTAAATTCCAAAGCTATGACGAGCAAAATAATTTTTGAGATTG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.