EDF1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002394
Fusion event
HBV-EDF1 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
chr9
Cytoband
q34.3
Reference genome
GRCh37/hg19
Start
139757024/136862572 (Hg38)
End
139757024/136862572 (Hg38)
Location type
Intronic
Target gene
EDF1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-296-3p ; hsa-mir-615-3p ; hsa-mir-92b-3p ; hsa-mir-18a-3p ; hsa-mir-99b-5p ; hsa-mir-149-5p ; hsa-mir-1207-3p ; hsa-mir-383-5p ; hsa-mir-6783-5p
Nearest miRNA
hsa-let-7a-1/Upstream/31549; hsa-mir-3621/Downstream/24161;
Nearest TSS
ENST00000422679/Upstream/5567; ENST00000414589/Downstream/3694;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/12406, chr9-CpG: 84/Downstream/3628
Upstream sequence
ggaaaagctacaggcactcaacaccagcccagcccatgagagctgcggcaggggctaaaccctgcaaagccacaggtgcattgccctagtagagggtttc
Downstream sequence
GGGTCCTCTGTGGAACTGGCTTCCGGCCCCATGCTGACAGGGCCCGGACCCGCTGTGCTCAGGCTCAGAGAACCATCGCCAACAGCACAGGCTGACGGGA
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate