LINGO1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001558
Fusion event
HBV-LINGO1 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
chr15
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
77910867/77618525 (Hg38)
End
77910867/77618525 (Hg38)
Location type
Intronic
Target gene
LINGO1
miRNAs that regulate target gene
hsa-mir-196a-3p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-6077
Nearest miRNA
hsa-mir-10393/Upstream/1856210; hsa-mir-11181/Downstream/1591263;
Nearest TSS
ENST00000557528/Upstream/49555; ENST00000560265/Downstream/13965;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/2731, chr15-CpG: 150/Downstream/13701
Upstream sequence
CCAGCAGCCTTTGCAACCTTCCACCCCAAAGGCCACCTCCTCCAGGAGGCCATCCTTGACCTACTCAGTCAGATATCACCTCTTGTCCCCAACACTGTTA
Downstream sequence
ttctttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttgagacggagtctcgctct
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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