EDF1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019027
Fusion event
HBV-EDF1 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
chr9
Cytoband
q34.3
Reference genome
GRCh37.55
Start
139760631/136866179 (Hg38)
End
139760631/136866179 (Hg38)
Location type
Intron4
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/35156; hsa-mir-3621/Downstream/20554;
Nearest TSS
ENST00000422679/Upstream/9174; ENST00000414589/Downstream/87;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/16013, chr9-CpG: 84/Downstream/21
Upstream sequence
cccttttctactaaaaatacaaaaatagctgggtgtagtggtgcatgcctgtaatcccagctactgagtaggctgaggcaggagaatcacttgaaccctg
Downstream sequence
AACAGAGAAATGGTACATCTTTTTCTTTCAATTTGCATACAATGGAAAAACAAGTATATATATATTTTACAAAGTTTAACTAATAAGACACTAGAGCAAA
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.
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