hsa-mir-3944-5p _LIHC.png
NPAS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019358
Fusion event
HBV-NPAS3 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr14
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
33955323/33486117 (Hg38)
End
33955323/33486117 (Hg38)
Location type
Intron3
Target gene
NPAS3
miRNAs that regulate target gene
hsa-mir-17-5p ; hsa-mir-3679-3p ; hsa-mir-4446-5p ; hsa-mir-361-3p ; hsa-mir-153-5p ; hsa-mir-589-3p ; hsa-mir-548as-3p ; hsa-mir-143-5p ; hsa-mir-2681-5p ; hsa-mir-3944-5p ; hsa-mir-8066
Nearest miRNA
hsa-mir-208a/Upstream/2471375; hsa-mir-1185-1/Downstream/3466192;
Nearest TSS
ENST00000550708/Upstream/270805; ENST00000552696/Downstream/74068;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/546088, chr14-CpG: 152/Downstream/313623
Upstream sequence
GAGCATGGGCACACTTTCTGAACTAAAAATTGGTAAATTACACCCACCCCCCCAAAATTAAAAATAACAGATACCCAACAAACAGATTCAACTATGCATA
Downstream sequence
ACATCTTTTACCCATGGAAGGAATGCATTTTTTTTTTTTTTAATTCTCACAAAGTCATGTATGGACTGGCTGCTGTTCTGGTACCAACACAAGTCATAGA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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