Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007685
Fusion event
HBV-COL28A1 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|Polymerase|
Start
2381
Orient
+
Integrated sequence
GCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAAC| |TCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAA
Host Sequence
Chromosome
chr7
Cytoband
p21.3
Reference genome
Start
End
7509713/7470082 (Hg38)
Orient
+
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-339/Upstream/403037; hsa-mir-10399/Downstream/10657138;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/286739, chr7-CpG: 85/Downstream/96659
Upstream sequence
GAGTTGGCTGCGGACAGGGCGTGAAGGCACTTGAGGGTGGGGAAGTGACTCTGACTGGGAGATGCTGAGGACAGGGAGGAAACCACCAGATAAGGGACAC
Downstream sequence
tggcaacaaaagccaaaattgacaaatggaatctaattaaactaaagagcttctgcacagcaaaagaaactaccatcagagtgaacaggcaacctacaac
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.