Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010436
Fusion event
HBV-TBCK 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
26
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCAAACTCT| |GCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATC
Host Sequence
Chromosome
chr4
Cytoband
q24
Reference genome
End
107197646/106276489 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-337-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-6740-5p ; hsa-mir-6729-3p ; hsa-mir-6780b-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-6741-5p ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-1284 ; hsa-mir-202-5p ; hsa-mir-4436b-5p ; hsa-mir-223-5p ; hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-567 ; hsa-mir-574-5p ; hsa-mir-6867-5p
Nearest miRNA
hsa-mir-12113/Upstream/4946075; hsa-mir-1243/Downstream/3212209;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/379877, chr4-CpG: 61/Downstream/758909
Upstream sequence
gaagggatgcatagggcaaattatcaggaaagcagctcaaagcttctgtgccctctcaaggcgcgccaccctgtaagcatcgccaagtgttcagctttct
Downstream sequence
ctgcctgaacccagaagttcgagaccagcctgggtaacacagtgagagcctatctctaaatacaataataataataacttctgctcatcaaaatatatct
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.