Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018995
Fusion event
HBV-SOX5 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
Host Sequence
Chromosome
chr12
Cytoband
p12.1
Reference genome
Start
End
23789461/23636527 (Hg38)
Location type
Intron5
Target gene
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-194-5p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-96-5p ; hsa-mir-130a-3p ; hsa-mir-181a-5p ; hsa-mir-132-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-1231 ; hsa-mir-632 ; hsa-mir-4288 ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4766-5p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-574-5p ; hsa-mir-5580-3p ; hsa-mir-555 ; hsa-mir-374a-3p ; hsa-mir-136-3p ; hsa-mir-4704-5p ; hsa-mir-3529-3p ; hsa-mir-6759-5p ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-933 ; hsa-mir-4783-5p ; hsa-mir-3607-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/5963133; hsa-let-7i/Downstream/575894;
Nearest CpG islands
Upstream sequence
CAGAGAGCTGGAAAGACAAGTTTTTCTCACCTCAAAAAGCCACTATCCCCCCCGAGCTCCATTTTTCCTTTCCCCACCCAGTTCACCAACCCAGTTATAC
Downstream sequence
TTTTCTGTGTCAGGCCCTGTTGGAAGTATGTCAGTAAAAGGAACCAGCTTTCAGCCAAAAAAGGGTCACATCCtttttattattttattttattttaaaG
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.