Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012423
Fusion event
HBV-SCFD2 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
precore/core protein|Core and e antigen|
Start
1948
Orient
+
Integrated sequence
TGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTAC| |TCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTC
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
Start
End
53995448/53129281 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12113/Upstream/416534; hsa-mir-1243/Downstream/7793338;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/266448, chr4-CpG: 43/Downstream/236260
Upstream sequence
AGTCCTTTACCTGTTTATTTTAAAGATGTTTTTGTCCTTTTTCTTAAAGCAGCTGAATCATTGCAAACTTTTATTTTCCCAAACCTTTATGAAGTAACTA
Downstream sequence
GGCTTCATTTTGTAAACACTTCAATGAAAATTAATACTCCACTTGGGACCAATTCAGTCCAGGTGCTAAAGACAGAATAAACAAGCAACACATGAAGGCC
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.