LGR5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019827
Fusion event
HBV-LGR5 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1823
Integrated sequence
TTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACT| |TTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAA
Host Sequence
Chromosome
chr12
Cytoband
q21.1
Reference genome
GRCh37.55
Start
71865117/71471337 (Hg38)
End
71865117/71471337 (Hg38)
Location type
Intron1
Target gene
LGR5
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-142-3p ; hsa-mir-3679-3p ; hsa-mir-526b-5p ; hsa-mir-361-3p ; hsa-mir-6793-3p
Nearest miRNA
hsa-let-7i/Upstream/1886514; hsa-mir-1178/Downstream/7947920;
Nearest TSS
ENST00000382841/Upstream/29439; ENST00000549015/Downstream/95925;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/30728, chr12-CpG: 83/Downstream/191651
Upstream sequence
TCTAGCActgcattttctagtacaataaccactagccattaaagagaagttaatataaaaaattaatatttaagttaatatttaattaaattaccagcct
Downstream sequence
ttcatgaccctatcatattcaaaggacactcagcccctcctaaggtcctcaaaagtctcatcctattacaacatcagctcaaagcccagaagctctttgt
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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