Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009684
Fusion event
HBV-PCSK1 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
Polymerase|large S protein|middle S protein|
Start
9
Orient
+
Integrated sequence
AATTCCACA| |ACCTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCT
Host Sequence
Chromosome
chr5
Cytoband
q15
Reference genome
Start
End
95736525/96400821 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-1185-1-3p ; hsa-mir-493-5p ; hsa-mir-1185-2-3p ; hsa-mir-485-5p ; hsa-mir-3942-3p ; hsa-mir-498 ; hsa-mir-4777-5p ; hsa-mir-526a ; hsa-mir-523-5p ; hsa-mir-522-5p ; hsa-mir-520c-5p ; hsa-mir-519c-5p ; hsa-mir-519b-5p ; hsa-mir-519a-5p ; hsa-mir-518f-5p ; hsa-mir-518e-5p ; hsa-mir-518d-5p ; hsa-mir-5100 ; hsa-mir-10b-3p ; hsa-mir-892c-5p ; hsa-mir-1179 ; hsa-mir-3156-5p
Nearest miRNA
hsa-mir-10397/Upstream/321609; hsa-mir-103a-1/Downstream/4415661;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/438707, chr5-CpG: 18/Downstream/32349
Upstream sequence
AAGACTTACGGTTGCCTTTTATAAAGTTGCCAAAGACTTTTGTGCCACCTTGGAATTAGAAATGACCAGGTTGTGGAGTAACATATACGGGAGGGCTCTC
Downstream sequence
tcacgcctgtaatcccagcactttgggaggccgaggcgggcggatcacaaggtcaggagatcgagaccatcttggctaacacggtgaaaccccgtctcta
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.