Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001863
Fusion event
HBV-NRXN1 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
p16.3
Reference genome
Start
End
50626932/50399794 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-16-5p ; hsa-mir-616-5p ; hsa-mir-498 ; hsa-mir-1537-5p ; hsa-mir-302a-5p ; hsa-mir-3607-3p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-574-5p ; hsa-mir-4752 ; hsa-mir-6867-5p ; hsa-mir-8056 ; hsa-mir-3691-5p ; hsa-mir-376c-5p ; hsa-mir-376b-5p ; hsa-mir-7114-5p ; hsa-mir-6818-5p ; hsa-mir-4320
Nearest miRNA
hsa-mir-1301/Upstream/1340136; hsa-mir-10b/Downstream/296378;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/52115, chr2-CpG: 96/Downstream/627683
Upstream sequence
TTGTGCATTCAGGTGTTTTTGAAAAACCTTGTTCAGTATTCTGCAAAAACTTACACTATTCCAAATCTACCCAGCTCTGTAACGAGAGAACTGGTaaaaa
Downstream sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaTTCTCAGAAAAATATTATCATTGAAAGGCatttaatttttaa
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.