Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015155
Fusion event
HBV-CLASP2 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
HBVgp3 X protein
Start
1700
Orient
-
Integrated sequence
GCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTG| |AGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT
Host Sequence
Chromosome
chr3
Cytoband
p22.3
Reference genome
Start
End
33592726/33551234 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-12127/Upstream/1044845; hsa-let-7g/Downstream/2193242;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/109862, chr3-CpG: 86/Downstream/166480
Upstream sequence
GGACATATTAAACTGAACTATTGGAAAATGCTCTACAATATATAATTCAAATGAATCATCTGTAATATGGACACACTGTGAGTTTTTGAGTGACATTGGT
Downstream sequence
CTCATATTAAAATATACCTTCCGAACATCAGAACTTTTGGGTTCTGTTGTCCAAGTGATGACCCGAGACACTGCTAGGCGAGTTTCACTGGAATTTATAA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.