PCDH11Y _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014310
Fusion event
HBV-PCDH11Y 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|large S protein|middle S protein|
Start
11
Orient
+
Integrated sequence
AATTCCACAAC| |CTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCT
Host Sequence
Chromosome
chrY
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
5477394/5609353 (Hg38)
End
5477394/5609353 (Hg38)
Orient
-
Location type
Intronic
Target gene
PCDH11Y
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-297 ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-376a-2-5p ; hsa-mir-3935 ; hsa-mir-511-3p ; hsa-mir-5694 ; hsa-mir-383-5p ; hsa-mir-432-3p ; hsa-mir-4775 ; hsa-mir-324-5p ; hsa-mir-1306-5p ; hsa-mir-590-3p
Nearest miRNA
hsa-mir-3690-2/Upstream/1003125; hsa-mir-12120/Downstream/7869824;
Nearest TSS
ENST00000430575/Upstream/553263; ENST00000429039/Downstream/636870;
Nearest CpG islands
None/Target, chrY-CpG: 62/Upstream/606169, chrY-CpG: 41/Downstream/636670
Upstream sequence
AGTATCATTAAAAACATCAACTTAACAAGGTCTGTAGTTAAAATCTGTATGGTGGCTTATGTTGTTGGTGTCAAAATTTAAAGTACTGTTTCAAAGTGGC
Downstream sequence
gagattctggtatgtggtgtcattgttctcgttggtttcaaagaacatctttatttctgccttcatttcgttatgtacccagtagtcattcaggagcagg
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.
Curate