Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006060
Fusion event
HBV-MAPKAPK2 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1538
Orient
+
Integrated sequence
CGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGGCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTA| |CGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCT
Host Sequence
Chromosome
chr1
Cytoband
q32.1
Reference genome
End
206890742/206717397 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-1229-3p ; hsa-mir-615-3p ; hsa-mir-193b-3p ; hsa-mir-324-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-3680-5p ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-483-3p ; hsa-mir-1231 ; hsa-mir-632 ; hsa-mir-4288 ; hsa-mir-8064 ; hsa-mir-1207-5p ; hsa-mir-1233-5p ; hsa-mir-1253 ; hsa-mir-1909-3p ; hsa-mir-3196 ; hsa-mir-4300 ; hsa-mir-4468 ; hsa-mir-4492 ; hsa-mir-4498 ; hsa-mir-4651 ; hsa-mir-4763-3p ; hsa-mir-483-5p ; hsa-mir-5001-5p ; hsa-mir-5591-5p ; hsa-mir-6081 ; hsa-mir-608 ; hsa-mir-6090 ; hsa-mir-6722-3p ; hsa-mir-6726-5p ; hsa-mir-6756-5p ; hsa-mir-6766-5p ; hsa-mir-6778-5p ; hsa-mir-6782-5p ; hsa-mir-6820-5p ; hsa-mir-6827-5p ; hsa-mir-762 ; hsa-mir-920 ; hsa-mir-3128 ; hsa-mir-4720-5p ; hsa-mir-4799-3p ; hsa-mir-5588-5p ; hsa-mir-6757-3p ; hsa-mir-6868-5p
Nearest miRNA
hsa-mir-101-1/Upstream/242533; hsa-mir-1182/Downstream/1084455;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/31091, chr1-CpG: 63/Downstream/191951
Upstream sequence
gaagcttaaatatagcaatatttgctatatataaagtgcacctggtacataatTGATGCGGTTGAAATGAAAATtcctctttctctttcagtgccatttg
Downstream sequence
ctggaagaaacagaagaaatatctctgtccccatctttcagtttcctacccaagactcctgtgtggttgacatcactgctgtgtgcagtgttcatgtcca
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).