Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015059
Fusion event
HBV-KCNQ4 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
1803
Orient
-
Integrated sequence
CATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTG| |CGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCA
Host Sequence
Chromosome
chr1
Cytoband
p34.2
Reference genome
Start
End
41256045/40790373 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-12136/Upstream/33001; hsa-mir-101-1/Downstream/2381279;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/5884, chr1-CpG: 51/Downstream/11874
Upstream sequence
agataaggcaccgaacactgctgggcactgttagccatgatcatcgttactgttattattATGCTGTTATCACTGTCCTCATTCTTCTCCTCCGGGGAGA
Downstream sequence
GGTGTGGTAGGTGTGCTGGGCTCAGCAAGGTGAGTGTGTCTGAGTCTGCTCTGGAGAGAATAGGAGCTATGTCTGCCTGTGTCCTGGGGCGAGTGGTTCT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.