PCDH15 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017781
Fusion event
HBV-PCDH15 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26867494
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
DQ089769.1
Region type
core protein;X protein;
Start
1817
Integrated sequence
TGTATTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGC| |AACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTA
Host Sequence
Chromosome
chr10
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
55871681/54111921 (Hg38)
End
55871681/54111921 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
PCDH15
Nearest miRNA
hsa-mir-1265/Upstream/2812266; hsa-mir-107/Downstream/495953;
Nearest TSS
ENST00000439456/Upstream/204704; ENST00000422842/Downstream/83925;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/1240255, chr10-CpG: 36/Downstream/1516387
Upstream sequence
CCCGAGGCAGTTTCCCTTATTATGCCACACAATACTCGCTGGGGTTCGCCTCTATCTGTCCCATTTTTTTCTGAGGAAAGTCTCTCAGGACATCTTTGAG
Downstream sequence
AATTTGAGAGCAAGAAATGACAGAAGCAAGAACTGGGCAGGGCTGTCAGAACTCCTCCTCCGACTCAGTTTCTGAATCCCCGCAGTATTCCCGTTGTTTG
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.
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