Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005122
Fusion event
HBV-CCDC142 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
2137
Orient
-
Integrated sequence
ACATTGTTCACCTCACCATACAGCACTCAGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTGGCCACCTGGGTGGGAAGTAATTTGGAAGACCCA| |GCATCCAGGGAATTAGTAGTCAGCTATGTCAATGTTAATATGGGCCTAAAAATCAGACAACTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGAAGAG
Host Sequence
Chromosome
chr2
Cytoband
p13.1
Reference genome
Start
End
74710163/74483036 (Hg38)
Orient
+
Location type
Exon TTC31,promoter
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-615-3p ; hsa-mir-221-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p ; hsa-mir-183-5p ; hsa-mir-5197-5p ; hsa-mir-4474-3p ; hsa-mir-6805-3p ; hsa-mir-5691 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-431-5p ; hsa-mir-6879-3p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-3194-3p ; hsa-mir-924 ; hsa-mir-4524a-3p ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-500b-3p ; hsa-mir-512-3p ; hsa-mir-5007-5p ; hsa-mir-4797-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/4230031; hsa-mir-10b/Downstream/607776;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/53, chr2-CpG: 161/Downstream/14876
Upstream sequence
TCCAGTCCGGGAGTCGCGGGGACCTTCATGGACTCTCTCGTGCTCCGTAATGGGAGGCTTCTGCCCCTAACAAACATGGCCGCCCACTCTGTCCCACCCC
Downstream sequence
GCCCTTTGGCTGGTATCAAATACTAGACTACCTTTCATTTCCGGGTCACTGTAGATGCGATGGCGCCGATTCCAAAGACTGTGGGGCGGATCAAGCTAGG
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).