Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019306
Fusion event
HBV-SH3RF2 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
chr5
Cytoband
q32
Reference genome
End
145353641/145974078 (Hg38)
Location type
Intron2
Target gene
miRNAs that regulate target gene
hsa-mir-4684-5p ; hsa-mir-4786-5p ; hsa-mir-769-5p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-433-5p ; hsa-mir-548c-3p ; hsa-mir-28-3p ; hsa-mir-3622b-5p ; hsa-mir-4253 ; hsa-mir-4645-5p ; hsa-mir-4673 ; hsa-mir-6508-5p ; hsa-mir-6862-5p ; hsa-mir-8067 ; hsa-mir-1827 ; hsa-mir-183-3p ; hsa-mir-34b-3p ; hsa-mir-3614-5p ; hsa-mir-3929 ; hsa-mir-425-3p ; hsa-mir-4419b ; hsa-mir-4452 ; hsa-mir-4459 ; hsa-mir-4478 ; hsa-mir-4649-3p ; hsa-mir-4722-5p ; hsa-mir-485-5p ; hsa-mir-6500-3p ; hsa-mir-665 ; hsa-mir-6746-5p ; hsa-mir-6771-5p ; hsa-mir-6808-5p ; hsa-mir-6884-5p ; hsa-mir-6893-5p ; hsa-mir-7160-5p ; hsa-mir-940
Nearest miRNA
hsa-mir-10397/Upstream/2294107; hsa-mir-103a-1/Downstream/3088235;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/37287, chr5-CpG: 57/Downstream/229084
Upstream sequence
accctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaatcctaaccc
Downstream sequence
gcttgctcaggttgtagtcagaacatttccttgtggctgtaaaactgagaacccaggcttcttgcctgctgttggctggaagcttccttcagctcctaga
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.