Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003891
Fusion event
HBV-LRRFIP1 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
q37.3
Reference genome
End
238528797/237620154 (Hg38)
Location type
Promoter
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-30a-5p ; hsa-mir-215-5p ; hsa-mir-34a-5p ; hsa-mir-192-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-186-5p ; hsa-mir-149-5p ; hsa-mir-218-5p ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-6868-3p ; hsa-mir-6780a-3p ; hsa-mir-6881-3p ; hsa-mir-7111-3p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-3124-3p ; hsa-mir-130b-5p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-1266-3p ; hsa-mir-4267
Nearest miRNA
hsa-mir-10b/Upstream/109166; hsa-mir-149/Downstream/1448663;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/132556, chr2-CpG: 124/Downstream/6764
Upstream sequence
TATATATATTGTTTCTCCTGATTTCAACTATTCAGAATTGTGAAAGTTtttatttatttatttatttgtttattttttgagatggagtctcgctctgtca
Downstream sequence
cccaggctggagtgcagtggcgcgatctcagctcactgcaacctccgcctcctggactcaagtgattctcctgcctcagcctcctgagtagatgggatta
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.