LINGO2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002096
Fusion event
HBV-LINGO2 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
p21.1
Reference genome
GRCh37/hg19
Start
28624872/28624874 (Hg38)
End
28624872/28624874 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
LINGO2
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-101-2/Upstream/7112689; hsa-let-7a-1/Downstream/238752;
Nearest TSS
ENST00000422679/Upstream/329543; ENST00000541043/Downstream/45411;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/1050885, chr9-CpG: 74/Downstream/587299
Upstream sequence
accctaaccctaaccctaacccaaccctaaccctaaccctaacccaaccctcaccctcaccctcaccctcaccctcaccctcaccctcaccctaacccta
Downstream sequence
tcactctcctctcctcaagcagaaggaaggagttacttttgttgctgccagctgcattgcctggggttaagggagaggttggacaagcactcctttatcc
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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