NPHS1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003442
Fusion event
HBV-NPHS1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
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
chr19
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
36338387/35847485 (Hg38)
End
36338387/35847485 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
NPHS1
miRNAs that regulate target gene
hsa-mir-640 ; hsa-mir-378a-5p ; hsa-mir-6778-3p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-3653-5p ; hsa-mir-150-5p ; hsa-mir-186-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-520h ; hsa-mir-520g-3p
Nearest miRNA
hsa-mir-10395/Upstream/501858; hsa-let-7e/Downstream/3562138;
Nearest TSS
ENST00000633603/Upstream/1975; ENST00000586102/Downstream/1509;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1249, chr19-CpG: 76/Downstream/8657
Upstream sequence
gtctcgttgcccagactggagtgcagtggcacaacctcggctcaccacaacctgggcctcccggattcaagcaattctccagcctcagcctctccagtag
Downstream sequence
ctgggattacaggcccccgccaccatgcccagctaattttttgtatttttagtagagacagggtttctccatgttggtcaggctggtctctaactcccga
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
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