Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019325
Fusion event
HBV-NECAB1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr8
Cytoband
q21.3
Reference genome
Start
End
91897470/90885242 (Hg38)
Location type
Intron5
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/10643758; hsa-mir-10400/Downstream/320243;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/93318, chr8-CpG: 78/Downstream/99760
Upstream sequence
ttggaggccttagctcacaaggggaaaaatgtttctaacaggagatacaaaaacaatctcaatgaattgaaagtttagacctatctctgattatttgggg
Downstream sequence
TATGCTAGGAGGATGGAGGACAGAGTACATAGTAATGTCTGGGCAGGCTCAAGACTTGCACTGGCACCTACCTGGCAATCATGTCACTGGTTCTTTCTAG
Target sequence
GCTAAGGTGGA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.