Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010434
Fusion event
HBV-SRGAP3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
S protein|Polymerase|large S protein|middle S protein|
Start
344
Orient
-
Integrated sequence
AGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAAC| |CTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTT
Host Sequence
Chromosome
chr3
Cytoband
p25.3
Reference genome
Start
End
9305491/9263807 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-4790/Upstream/4013552; hsa-let-7g/Downstream/1016544;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/127302, chr3-CpG: 27/Downstream/99192
Nearest cancer related gene
SRGAP3(TSG, No orient, 0)
Upstream sequence
ttagtaaatggtgcagggaaaactggctagccatacatagaaagctgaaactggatcccttccttacaccttatacaaaaattaattcaagatggatgga
Downstream sequence
ccatttcttctgaaactattccaaacaatagaaaaagagggactcctccctaactcatgttatgaagccagcatcatcctgatactaaaacctggcagag
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.