PDSS2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011041
Fusion event
HBV-PDSS2 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|
Start
3170
Orient
+
Integrated sequence
ACAAACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAG| |GCCATGCAGTGG
Host Sequence
Chromosome
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
107485919/107164715 (Hg38)
End
107485919/107164715 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
PDSS2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-142-3p
Nearest miRNA
hsa-mir-10398/Upstream/380495; hsa-mir-1202/Downstream/11904332;
Nearest TSS
ENST00000381078/Upstream/49446; ENST00000618129/Downstream/47444;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/48609, chr6-CpG: 19/Downstream/294316
Nearest cancer related gene
PDSS2(TSG, No orient, 0)
Upstream sequence
taggctccacctctgggggcagggcacagacaaacaaaaagacagcagtaacctctgcagacttaaatgtccctgtctgacagctttaaagagagcagtg
Downstream sequence
gttctagatccttgaggaatcgccacactgtcttccacaatggttgaactagtttacagttccatcaacagtgtcaaagtgttcctatttctccacatcc
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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