Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015018
Fusion event
HBV-MYH13 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
1800
Orient
-
Integrated sequence
AGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |CTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG
Host Sequence
Chromosome
chr17
Cytoband
p13.1
Reference genome
Start
End
10269457/10366140 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1253/Upstream/2179136; hsa-mir-10226/Downstream/1715759;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/167017, chr17-CpG: 25/Downstream/272024
Upstream sequence
TTCATCTTAAAGTCCTAGCACTGATCAAACCACTTAAGCTCTCTGGTCCACAGCCTCTTCCCACTTATAAGGGAGAAGCCAGCCTCACTCCTGTCTAAGG
Downstream sequence
TTCCCGTAAGTCCTGTGTGGACTGTTCCTCTTCTCAGAATTTGcttctctcattccccctcggcacctcttccctctactccactacctattttcctcaa
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.