Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004670
Fusion event
HBV-FBXW2 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
1781
Orient
+
Integrated sequence
GTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGC| |TGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTG
Host Sequence
Chromosome
chr9
Cytoband
q33.2
Reference genome
End
123521812/120759534 (Hg38)
Orient
+
Location type
Exon
Target gene
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-484 ; hsa-mir-106b-5p ; hsa-mir-222-3p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-218-5p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6866-5p ; hsa-mir-4451 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-98-5p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-mir-6087 ; hsa-mir-7112-5p ; hsa-mir-589-3p ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-1273e ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-655-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-7162-3p ; hsa-mir-4649-3p ; hsa-mir-6840-3p ; hsa-mir-665 ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-4695-5p ; hsa-mir-25-3p ; hsa-mir-25-5p ; hsa-mir-32-5p ; hsa-mir-363-3p ; hsa-mir-367-3p ; hsa-mir-4325 ; hsa-mir-455-3p ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-658 ; hsa-mir-6807-5p ; hsa-mir-7703 ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-let-7a-1/Upstream/514484; hsa-mir-12126/Downstream/1360548;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/44557, chr9-CpG: 56/Downstream/33587
Upstream sequence
ttgaacccaggagggagaggttgcagtaagctgagattgcaccattgcactccagcctgggcaacaattgtgaaactccgtctcaaaaaataaaataaaa
Downstream sequence
GCTATAGATGTTGGATTGCTGACAGAACTATCTCTTCAACCTGAGCATTCTCATCAAGTATACTAAGTCTAAATCAGTGAAATATGCCTGTTCACAATCT
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).