TF _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010217
Fusion event
HBV-TF 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
1819
Orient
-
Integrated sequence
TTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGC| |AACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTA
Host Sequence
Chromosome
chr3
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
133405828/133686984 (Hg38)
End
133405828/133686984 (Hg38)
Orient
+
Location type
Intronic
Target gene
TF
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-19a-3p
Nearest miRNA
hsa-let-7g/Upstream/1701053; hsa-mir-1224/Downstream/680820;
Nearest TSS
ENST00000440867/Upstream/24604; ENST00000474287/Downstream/58972;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/12171, chr3-CpG: 45/Downstream/59121
Nearby gene
TOPBP1(-25091) ; TF(+59149) ;
Upstream sequence
GAATCCCCAGAAGATGATTCCTGCCAGAGGGCTTGTGACGGCTCCTTTTTTGCTTTTCACAATGAACATCTTATTCTGGGCTGCAAATTTGGATGAGGGG
Downstream sequence
cacatatacaccatggaatactatgcagccataaaagaggatgagtttgtgtcctttgtagggacatggttgaagctggaaaccatcattctgagcaaac
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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