Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003949
Fusion event
HBV-RNF103-CHMP3 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr2
Cytoband
p11.2
Reference genome
Start
End
86874069/86646946 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-432-5p ; hsa-mir-8064 ; hsa-mir-500b-3p ; hsa-mir-133b ; hsa-mir-133a-3p ; hsa-mir-3912-5p ; hsa-mir-5587-5p ; hsa-mir-9-5p ; hsa-mir-383-3p ; hsa-mir-3065-3p ; hsa-mir-6760-3p ; hsa-mir-3617-3p ; hsa-mir-34c-3p ; hsa-mir-129-5p ; hsa-mir-7850-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3613-3p ; hsa-mir-888-5p ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-7152-5p ; hsa-mir-4303 ; hsa-mir-6740-3p ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-4778-3p ; hsa-mir-3182 ; hsa-mir-6751-3p ; hsa-mir-1199-5p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-6748-3p ; hsa-mir-141-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/453838; hsa-mir-10b/Downstream/547840;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/22891, chr2-CpG: 208/Downstream/72332
Upstream sequence
gcccAGATTGCCACAAAAAGaatataaataaataaaataaaaataCTTAAAGCAAAATAGAAGAAAGGAGACAATAATCAAGGAGATGGGGGAGGAGATG
Downstream sequence
AAAACCACATACTGGTCCATGGACAATAGAAGTGGAAAAAACCTGGGACCTTGGGCTTGTTTAGAAGCCTCCTGGGTATGAGAAGGATCACATAGGGAGC
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.