LYNX1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013166
Fusion event
HBV-LYNX1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
Polymerase|
Start
1344
Orient
-
Integrated sequence
ACCTTTTCGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCCGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATTATCGGGACTGATAACTCTG| |TTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCT
Host Sequence
Chromosome
chr8
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
143846505/142765087 (Hg38)
End
143846505/142765087 (Hg38)
Orient
-
Location type
Exonic
Fragile sites / regions
FRA8D
Target gene
LYNX1
miRNAs that regulate target gene
hsa-mir-744-5p
Nearest miRNA
hsa-mir-1204/Upstream/588669; hsa-mir-10400/Downstream/967996;
Nearest TSS
ENST00000518652/Upstream/1971; ENST00000510610/Downstream/4698;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/25195, chr8-CpG: 118/Downstream/11776
Upstream sequence
GTCCCAGTGGAGGGCAGGGCTTGGGTGAGGAGTGCAAGATGCTGCCCAGGAGCACTCAGAGACTCCAACTCTTCCCTCAGCCACATGTCTGTAGGTCTTG
Downstream sequence
GGAGCACCCTCCGAAGCCCGTGCACTGGTGACACCATATGGCTTCGGCTGCAGCTGCGGACATGGGGACAGACAGGACACAAACGGATGGGAGGCAGGTG
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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