hsa-mir-548ai _LIHC.png
PCDH9 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001193
Fusion event
HBV-PCDH9 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
chr13
Cytoband
q21.32
Reference genome
GRCh37/hg19
Start
67346498/66772366 (Hg38)
End
67346498/66772366 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA13B
Target gene
PCDH9
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-188-5p ; hsa-mir-127-5p ; hsa-mir-4635 ; hsa-mir-7843-3p ; hsa-mir-4735-3p ; hsa-mir-1264 ; hsa-mir-18b-5p ; hsa-mir-18a-5p ; hsa-mir-570-5p ; hsa-mir-548ba ; hsa-mir-548ai ; hsa-mir-548ag ; hsa-mir-548m
Nearest miRNA
hsa-mir-1297/Upstream/554042; hsa-mir-1267/Downstream/10925646;
Nearest TSS
ENST00000623511/Upstream/466057; ENST00000611609/Downstream/52803;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/2927820, chr13-CpG: 92/Downstream/458010
Nearest cancer related gene
PCDH9(TSG, No orient, 0)
Upstream sequence
GAAATCATGTTTCTATCAATTCTCAAAACTCCCATCTTTTGTGGCATCATTTGATGTTAATTTGCAATACAAAGTTAACTTACATCTCATTATCATGCCA
Downstream sequence
CAATTTGTTTACATGCAAGTGTTCAATTTCTAGCTCATTTTTTCCTCATTTATAAAATTATCTTTGGATTATTTTTCTGTTTAGTAAATTGTAAGCAAAT
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate