LINGO1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019411
Fusion event
HBV-LINGO1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
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
chr15
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
77910870/77618528 (Hg38)
End
77910960/77618618 (Hg38)
Location type
Intron1
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/1856213; hsa-mir-11181/Downstream/1591170;
Nearest TSS
ENST00000557528/Upstream/49558; ENST00000560265/Downstream/13872;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/2734, chr15-CpG: 150/Downstream/13608
Upstream sequence
AACTAAACAGCTGAAAGCAAGGGCCAGATAATTGTCTGGTGGTGGTGATCACGGACTCCTCAGCCATTGCCAGCCACATTTATCCTCAGAGATTTTCACT
Downstream sequence
tcgctctgtcgcccaggctggagtgcagtggcgggatctcggctcactgcaagctccgcctcccgggttcacgccattctcctgcctcagcctcccaagt
Target sequence
tttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttgagacggagtc
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate