Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015048
Fusion event
HBV-EVPLL 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;HBVgp4 precore/core protein
Start
1833
Orient
+
Integrated sequence
GGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTC| |TGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAG
Host Sequence
Chromosome
chr17
Cytoband
p11.2
Reference genome
Start
End
18287134/18383820 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1253/Upstream/42934; hsa-mir-10226/Downstream/960686;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/337, chr17-CpG: 35/Downstream/27885
Upstream sequence
ccagcactttgggaggctgaggctggccgatcacttgaggtcaggagttcgagatcagcctggccaacatggtgaaaccctgtctctactaaaaatacca
Downstream sequence
aaattagctagaggtggtggcacgcgcctgtaatcccagctactcaggaggctgaggcaggagaatcgcttgaacccaggaggcggaggttgcagtgggc
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.