Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008776
Fusion event
HBV-PTPN21 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
243
Orient
-
Integrated sequence
CCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCG| |CAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAA
Host Sequence
Chromosome
chr14
Cytoband
q31.3
Reference genome
Start
End
88996277/88529933 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1260a/Upstream/11263643; hsa-mir-1185-1/Downstream/5418293;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/49740, chr14-CpG: 29/Downstream/21383
Upstream sequence
cagccgggcatggtggcaggaacctgtaatcccagctacttggaaggctgaggccagagaattgcttgaacccaggaggtggaggtagcagtgagccaaa
Downstream sequence
atcacaccatgcacttcagtctgggcgacagagtcagacaccatctcaagaaaaaaaaaaaaagaaaaagaagaatcttaggagctgtgaggcaaaagca
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.