Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019292
Fusion event
HBV-C4orf19 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
chr4
Cytoband
p14
Reference genome
Start
End
37456836/37455214 (Hg38)
Location type
Intron1
Target gene
miRNAs that regulate target gene
hsa-mir-335-3p ; hsa-mir-376b-3p ; hsa-mir-376a-3p ; hsa-mir-1273f ; hsa-mir-3976 ; hsa-mir-122-5p ; hsa-mir-143-5p ; hsa-mir-3135b ; hsa-mir-3652 ; hsa-mir-4430 ; hsa-mir-500b-3p ; hsa-mir-504-3p ; hsa-mir-564 ; hsa-mir-5693 ; hsa-mir-5698 ; hsa-mir-6499-3p ; hsa-mir-6760-3p ; hsa-mir-6773-3p ; hsa-mir-6879-3p ; hsa-mir-891a-3p
Nearest miRNA
hsa-mir-12113/Upstream/213134; hsa-mir-1243/Downstream/1412818;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1169, chr4-CpG: 121/Downstream/230565
Upstream sequence
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNaccctaaccctaaccctaaccctaaccctaacccta
Downstream sequence
CTTCAGTTGATACTATTTTAGGAAGGATAAGACAGATGTTAAAGATCATAGACCACCTTACTGGTCCCAGCTGTGAAACACTGTCAGGAGGCAGATAATT
Target sequence
GAATGAGAAAGAAATGGAAAGCGGTTACTGCTTTTAAACATAATAGAGTCTATATTTGTTGCCTACCCCTCCCCCTTCCCCATTTAATC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.