PSD2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014176
Fusion event
HBV-PSD2 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|
Start
1760
Orient
-
Integrated sequence
AGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGT| |TAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCT
Host Sequence
Chromosome
chr5
Cytoband
q31.2
Reference genome
GRCh37/hg19
Start
139104314/139724729 (Hg38)
End
139104314/139724729 (Hg38)
Orient
-
Location type
Intronic
Target gene
PSD2
Nearest miRNA
hsa-mir-10397/Upstream/2077080; hsa-mir-103a-1/Downstream/838942;
Nearest TSS
ENST00000502646/Upstream/40084; ENST00000607370/Downstream/21494;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/13301, chr5-CpG: 16/Downstream/15696
Nearby gene
CXXC5(-41634) ; PSD2(+71092) ;
Upstream sequence
AAGCTTATATTTTCACAAAGCTAGTGATTTCAGTGGATAAAACTTCTGTTTTCCgcgtaaacccaggaggcggagcttgcagtgagccaagatcgcgcca
Downstream sequence
gAGATAACTTCCCATCCCCCATCTCACATGTTactttcctatctctaagaccctctcacatcagccagattcacccaatacttcttgggagtaggtggag
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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