ELK3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004604
Fusion event
HBV-ELK3 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Nontumor
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
chr12
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
96628593/96234815 (Hg38)
End
96628593/96234815 (Hg38)
Location type
Intronic
Target gene
ELK3
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-124-3p ; hsa-mir-193b-3p ; hsa-mir-106b-5p ; hsa-mir-3163 ; hsa-mir-610 ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-505-3p
Nearest miRNA
hsa-let-7i/Upstream/924831; hsa-mir-1178/Downstream/1257094;
Nearest TSS
ENST00000382841/Upstream/10842; ENST00000549985/Downstream/12316;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/39448, chr12-CpG: 30/Downstream/12204
Nearest cancer related gene
ELK3(OG, No orient, 0)
Upstream sequence
attgagcccattgtagaggtggggatgctgagtctccaagaggtgtaagtcacggactcaagatgcagcagcagggcggtggcagagctttcagactaag
Downstream sequence
agtgttgacccccaaggcccatgcCTGGGCTTCCAAAGCTGGAGGGCGACACAGCTCCAGAGCCCTGGGCCCAGACTTGAGTCCTGTATGCCCAGTACTG
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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