ELK3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019355
Fusion event
HBV-ELK3 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr12
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
96658697/96264919 (Hg38)
End
96658700/96264922 (Hg38)
Location type
Intron4
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/954935; hsa-mir-1178/Downstream/1226987;
Nearest TSS
ENST00000382841/Upstream/9459; ENST00000554621/Downstream/18711;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/17530, chr12-CpG: 163/Downstream/134491
Nearest cancer related gene
ELK3(OG, No orient, 0)
Upstream sequence
TTGGCCAGCAGAGGGAGACCAGAGAGTCGTGAAGCACGCAACGAAGCCACACCCAGATTAGGGTTATTATCTGTCTCTTCTCTGAATTTTCAAAAAACAC
Downstream sequence
aggcacagggatattggctagtttattcaagataacacactcgtaagtggtggagccctgactcaagttttaagtttgtggtcccagccaccattctcac
Target sequence
cta
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate