Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018628
Fusion event
HBV-CSMD3 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1825
Integrated sequence
TAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTT| |TTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGA
Host Sequence
Chromosome
chr8
Cytoband
q23.3
Reference genome
End
114299205/113286976 (Hg38)
Location type
Intron67
Target gene
Nearest miRNA
hsa-mir-12123/Upstream/643393; hsa-mir-10400/Downstream/3587752;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/3311133, chr8-CpG: 21/Downstream/145621
Upstream sequence
attgataattgtataacatttcatccagtgacaacagaatacatattcttttcaagtgaacacaaaacattttccaagataattaacattctgtgccata
Downstream sequence
agaTTTATTTAAAAATAAAAGTGGTACTATTACAAACTCTCAGGATTTTGTGAATGTTAAGTAAGGTAATTCATGTGAAATGATCTAGTGTACTTTTTGG
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.