NPHS1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019007
Fusion event
HBV-NPHS1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
GRCh37.55
Start
36335965/35845063 (Hg38)
End
36335965/35845063 (Hg38)
Location type
Intron15
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/499436; hsa-let-7e/Downstream/3564560;
Nearest TSS
ENST00000633603/Upstream/31764; ENST00000586102/Downstream/447;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/644, chr19-CpG: 80/Downstream/310
Upstream sequence
caggccccctcccttccctacacatcaagctcgaggatttgccccacccaggactggcaaattagctttactcaacatgacctgagtcaggtaactaaaa
Downstream sequence
tcaagaccagcctgggcaacatagtgagaccccgttgctacaaaaagtaaaaataaactagcgaagcgtggtagcgcacacctgtagtctcagctactcg
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Curate