Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005779
Fusion event
HBV-DGKH 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
1819
Orient
-
Integrated sequence
TGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATA
Host Sequence
Chromosome
chr13
Cytoband
q14.11
Reference genome
Start
End
42777085/42202949 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-3935 ; hsa-mir-656-3p ; hsa-mir-577 ; hsa-mir-1277-5p ; hsa-mir-575 ; hsa-mir-4676-5p ; hsa-mir-6858-3p ; hsa-mir-4798-3p ; hsa-mir-889-3p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-545-5p ; hsa-mir-3163 ; hsa-mir-4709-5p ; hsa-mir-4282 ; hsa-mir-4789-5p ; hsa-mir-466 ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-568 ; hsa-mir-190a-3p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-5011-5p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-1305 ; hsa-mir-6794-3p ; hsa-mir-766-5p ; hsa-mir-4778-3p ; hsa-mir-1304-3p ; hsa-mir-4509 ; hsa-mir-4744 ; hsa-mir-1207-3p ; hsa-mir-4639-3p ; hsa-mir-3161 ; hsa-mir-6804-5p ; hsa-mir-513b-5p ; hsa-mir-4457 ; hsa-mir-125b-2-3p ; hsa-mir-3614-3p ; hsa-mir-6873-5p ; hsa-mir-5680 ; hsa-mir-421 ; hsa-mir-505-3p ; hsa-mir-7159-5p
Nearest miRNA
hsa-mir-2276/Upstream/634554; hsa-mir-1267/Downstream/1993180;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/153525, chr13-CpG: 84/Downstream/68768
Upstream sequence
GACTTTTTTGCCCATAATATACGTAATTTACATGGGTTAAGGAGACTGTTCTATTTATTAACTGAAATAATAATTATATATTGTTTCAAGTTCTGTAAGT
Downstream sequence
ACTAAGATACATGAAGAAAAACAAATAACTTTAAAAAACAGTCTTCATCTGTAGGCTATAATGAAATATGTGATTGAGAACAAGTAGTTGTTTAATTCAC
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).