Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019441
Fusion event
HBV-RXRA integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr9
Cytoband
q34.2
Reference genome
End
137328310/134436464 (Hg38)
Location type
Intron9
Target gene
miRNAs that regulate target gene
hsa-mir-423-3p ; hsa-mir-128-3p ; hsa-mir-574-3p ; hsa-mir-486-3p ; hsa-mir-7106-5p ; hsa-mir-4734 ; hsa-mir-4532 ; hsa-mir-596 ; hsa-mir-3940-3p ; hsa-mir-3692-3p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-1976 ; hsa-mir-6747-3p ; hsa-mir-4722-3p ; hsa-mir-6727-3p ; hsa-mir-660-3p ; hsa-mir-4667-3p ; hsa-mir-4258 ; hsa-mir-2681-5p ; hsa-mir-3180-5p ; hsa-mir-7702 ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-4724-3p ; hsa-mir-488-5p ; hsa-mir-6782-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-let-7a-1/Upstream/56992; hsa-mir-126/Downstream/412834;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/27115, chr9-CpG: 22/Downstream/3006
Upstream sequence
TACTAAGTCCTTCACAGATATCAGTCACAGCACAAACTCCAGAATCTGATACAGTATACTACCAAAAATGAAATATGTAAAAACATCACATGAAAAAACA
Downstream sequence
CAGGAGCGGACAGGGGTGAAGATGGTCATGATCCAGGATGGCCCATTGCCCACGGGAGCAGACAAGCCTCTTCGTATCACTGGAGATGCATTTAAAGTAC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.