Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001494
Fusion event
HBV-NECAB1 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
chr8
Cytoband
q21.3
Reference genome
Start
End
91913978/90901750 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-3941 ; hsa-mir-223-5p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-297 ; hsa-mir-567 ; hsa-let-7c-3p ; hsa-mir-4719 ; hsa-mir-5582-5p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-3074-3p ; hsa-mir-338-5p ; hsa-mir-1277-5p ; hsa-mir-4282 ; hsa-mir-6883-3p ; hsa-mir-6505-3p ; hsa-mir-617
Nearest miRNA
hsa-mir-12123/Upstream/10660277; hsa-mir-10400/Downstream/303735;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/109837, chr8-CpG: 78/Downstream/83252
Upstream sequence
gtgtgacaaccatctgaaaaacagacaacagacacaaacatgggaatacttttagatcttgaaattattggacatggactataaggtaactatgcttact
Downstream sequence
CTTGTCATTAATTGAATAGTATCGCTCTCTCACACTAACTTGAGCCTTGTAGTTACACACATTTAATGGAGGAATGAGAATGTTCCTTCATTAGCAAACC
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.