Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006019
Fusion event
HBV-PABPC1 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
2148
Orient
-
Integrated sequence
CTCACCATACAGCACTCAGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTGGCCACCTGGGTGGGAAGTAATTTGGAAGACCCAGCATCCAGGGA| |ATTAGTAGTCAGCTATGTCAATGTTAATATGGGCCTAAAAATCAGACAACTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGAAGAGAAACTGTTCTT
Host Sequence
Chromosome
chr8
Cytoband
q22.3
Reference genome
End
101731714/100719486 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-125b-5p ; hsa-mir-30a-5p ; hsa-mir-1295a ; hsa-mir-744-5p ; hsa-mir-423-5p ; hsa-mir-18a-3p ; hsa-mir-193b-3p ; hsa-mir-423-3p ; hsa-mir-149-5p ; hsa-mir-181a-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-let-7b-5p ; hsa-mir-34c-5p ; hsa-mir-1256 ; hsa-mir-5588-5p ; hsa-mir-4720-5p ; hsa-mir-4799-3p ; hsa-mir-8088 ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-561-3p ; hsa-mir-3684 ; hsa-mir-631 ; hsa-mir-3661 ; hsa-mir-3124-3p ; hsa-mir-449c-3p ; hsa-mir-4307 ; hsa-mir-1227-3p ; hsa-mir-4252 ; hsa-mir-6499-3p ; hsa-mir-2467-3p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-4537 ; hsa-mir-17-3p ; hsa-mir-1273g-3p ; hsa-mir-6505-3p ; hsa-mir-617 ; hsa-mir-4705 ; hsa-mir-888-3p ; hsa-mir-429 ; hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p
Nearest miRNA
hsa-mir-12123/Upstream/16462; hsa-mir-10400/Downstream/1405946;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/69802, chr8-CpG: 191/Downstream/1499
Upstream sequence
TTGAAACTTCTTTTGACTGCATCCTTTCCAATCCTATTGTCATTCCCATAGTAACACTGCCTGCTAAATATCTATCTGAGAGAAGCtgtgtgtgtgtgtg
Downstream sequence
CTATCAATGTAGCAATAAGTTTTTAAAAAAGAACAAGAAATCCACTTAAGTAATTAATTGGATAGTAAATTGTACATACAGAAACTAGACAAATGGAAAA
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).