Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004679
Fusion event
HBV-TGFB2 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
1896
Orient
-
Integrated sequence
GTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTG| |GGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGAC
Host Sequence
Chromosome
chr1
Cytoband
q41
Reference genome
End
218607404/218434062 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-141-3p ; hsa-mir-29b-3p ; hsa-mir-335-5p ; hsa-mir-375 ; hsa-mir-21-5p ; hsa-mir-137 ; hsa-mir-4446-5p ; hsa-mir-510-3p ; hsa-mir-3679-3p ; hsa-mir-8058 ; hsa-mir-5009-5p ; hsa-mir-6826-3p ; hsa-mir-631 ; hsa-mir-3661 ; hsa-mir-422a ; hsa-mir-378i ; hsa-mir-378h ; hsa-mir-378f ; hsa-mir-378e ; hsa-mir-378d ; hsa-mir-378c ; hsa-mir-378b ; hsa-mir-378a-3p ; hsa-mir-3690 ; hsa-mir-6832-3p ; hsa-mir-619-3p ; hsa-mir-193a-3p ; hsa-mir-200a-3p ; hsa-mir-199a-5p ; hsa-mir-148a-3p ; hsa-mir-142-5p ; hsa-mir-23a-5p ; hsa-mir-23b-5p ; hsa-mir-145-5p ; hsa-mir-153-5p
Nearest miRNA
hsa-mir-101-1/Upstream/6356377; hsa-mir-1182/Downstream/1683791;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/86898, chr1-CpG: 46/Downstream/739705
Upstream sequence
GGCTATACTACAGTAGAGCTAAATTTAGGTAATGAATTAGAACACTGTTAATAGTTTTGGTTTAGTCATGCTGTCAGAATGCCAACTCAGCCTTTTCTCT
Downstream sequence
TGCTCTTTTTCCCCTCCAGATTCTCAAGTCCAAAGATTTAACATCTCCAACCCAGCGCTACATCGACAGCAAAGTTGTGAAAACAAGAGCAGAAGGCGAA
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).