PDLIM1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004579
Fusion event
HBV-PDLIM1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Nontumor
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
chr10
Cytoband
q23.33
Reference genome
GRCh37/hg19
Start
97051869/95292112 (Hg38)
End
97051869/95292112 (Hg38)
Location type
Promoter
Fragile sites / regions
FRA10D
Target gene
PDLIM1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-504-5p ; hsa-mir-320a ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-107/Upstream/5699285; hsa-mir-1287/Downstream/772203;
Nearest TSS
ENST00000439456/Upstream/1088; ENST00000461927/Downstream/63934;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/745, chr10-CpG: 33/Downstream/3259
Upstream sequence
ttcctcacctgccccccagtctgccaggctgtgctccttgctcctaactcagggccttgcctcagggccctgtctgcaatgctgttctcccagacatccc
Downstream sequence
caccactctctgtcattttctaggggccggacacgtggctcacgcctggaatcccggcactttgggaggctgagtcaggaggatcagttgagcccaggaa
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate