Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005016
Fusion event
HBV-FGG 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
2432
Orient
-
Integrated sequence
GAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAAT| |CTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAA
Host Sequence
Chromosome
chr4
Cytoband
q32.1
Reference genome
End
155533173/154612021 (Hg38)
Orient
+
Location type
Exon
Target gene
miRNAs that regulate target gene
hsa-mir-409-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-144-3p ; hsa-mir-29c-3p ; hsa-mir-1304-5p ; hsa-mir-6765-5p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-623 ; hsa-mir-4755-3p ; hsa-mir-6089 ; hsa-mir-5008-5p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-6780b-3p ; hsa-mir-4780 ; hsa-mir-4645-5p ; hsa-mir-4673 ; hsa-mir-6866-3p ; hsa-mir-188-5p
Nearest miRNA
hsa-mir-12113/Upstream/2075505; hsa-mir-1305/Downstream/4516781;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/61491, chr4-CpG: 39/Downstream/14811
Upstream sequence
gttgatggcaaagagcatatggaatgggtagttgaagcagatagttgtaaatactagctatgatgcagatagttgtaaatactagctatgactacttgtc
Downstream sequence
TTTTGATGATTCATCAGGATTATAAGTGAGTTGGATTGCTTTTATCAGCTGTTTGACTTCTGATGTTTTGTTTTCAACTTGATGTAAGATGTCTTCCAAA
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).