Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004394
Fusion event
HBV-HNRNPH1 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
chr5
Cytoband
q35.3
Reference genome
End
179043131/179616130 (Hg38)
Location type
Exonic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-193b-3p ; hsa-mir-331-3p ; hsa-mir-149-5p ; hsa-mir-222-3p ; hsa-mir-30d-5p ; hsa-mir-197-3p ; hsa-mir-1245a ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-2355-5p ; hsa-mir-383-5p ; hsa-mir-4262 ; hsa-mir-4275 ; hsa-mir-4276 ; hsa-mir-4697-3p ; hsa-mir-4772-5p ; hsa-mir-5190 ; hsa-mir-5702 ; hsa-mir-8079
Nearest miRNA
hsa-mir-10397/Upstream/2986630; hsa-mir-1229/Downstream/182148;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/38295, chr5-CpG: 158/Downstream/6871
Upstream sequence
gtatttagcagtatttccttgttttaatttataattccctaatgatgtatgatgttgtcatctttttatattctaatttgtcatctctgtatcttctttg
Downstream sequence
CCACTCATGCTGCTCTGGCCACCGTAGCCGCCTCCGTAACCCCCACTCAGCTGCTGGCTGGCTGGGCCCCCGTAGCTGGACTGGTTTGCTGTTAAGTTAA
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.