Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020168
Fusion event
HBV-ATP2C2 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1162
End
2258
Orient
+
Integrated sequence
GGTCAGGTCTCTGCCAAGTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGT
Host Sequence
Chromosome
chr16
Cytoband
q24.1
Reference genome
Start
End
84443183/84409577 (Hg38)
Orient
+
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1225/Upstream/900121; hsa-mir-11401/Downstream/798219;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/39638, chr16-CpG: 17/Downstream/95701
Upstream sequence
GAGGACAGTCAGGGGACAGCCCCATGGCAAAGCAGCTCCCACAGCCGACGCCGAGGGCAGAGGGCCGGGGTCTCACCTGGCAGGAACCCTGCCCCTTCCT
Downstream sequence
cagctcagtacaacctctgcttctcctgcctcagccttctgagcagctgggattacaggtgcccgccaccactcctggttaatttttgctaatttttata
Target sequence
CAGCCACAGGTCTGCTGAGTCTCTGCTTGTTATTGTATATAAAGAAAAAAAAGAGTTTGCTGTAGGGGGGAAAAAGGAGCATACAGAAGAAAGAAAGGAAAGCAAATCCACATCCTTCTTTACCCTAATATCAAGGTGCCCTGGTTTATTCGGCCACTGCTTGCTTGCTGGACACACAGGTGCTTCTGGGTCTTTGCTAGAGCAGTGTTGCAGGGAATTCCTTTCCCGTGACCCTGGGATGAGGGGAATAGAGCC
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.