SH2D4B _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011239
Fusion event
HBV-SH2D4B 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|precore/core protein|
Start
1827
Orient
-
Integrated sequence
AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT
Host Sequence
Chromosome
chr10
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
82309653/80549897 (Hg38)
End
82309653/80549897 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D
Target gene
SH2D4B
Nearest miRNA
hsa-mir-1265/Upstream/4997344; hsa-mir-107/Downstream/5714797;
Nearest TSS
ENST00000439456/Upstream/9078; ENST00000372150/Downstream/57402;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/13461, chr10-CpG: 149/Downstream/1324396
Upstream sequence
AACCTCGACTTACCAGGTGGGCAGTGAGAGGAGCCAGAGCAGAGGCTGCTGTGAGCAGGCATGGGGTCACCCACAGTCACCGGTGCTGATGGCACTTGGT
Downstream sequence
ACCTGGCAGGCATGGGCATCCCCAGGGGTGAGGGTGGTTTCTGTGGCTGTGGAGAAAGATTAATATttaattaatttaattaattaacaattaataatta
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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