APTX _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000184
Fusion event
HBV-APTX integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1821
Integrated sequence
TGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATA
Host Sequence
Chromosome
chr9
Cytoband
p21.1
Reference genome
GRCh38.p7
Start
32909624 (Hg38)
End
32909624 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
APTX
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-5693 ; hsa-mir-6783-3p ; hsa-mir-4279 ; hsa-mir-1343-3p ; hsa-mir-377-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-2276-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-1281 ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-4485-5p ; hsa-mir-1228-3p ; hsa-mir-6722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-383-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-1304-3p ; hsa-mir-1307-3p ; hsa-mir-4638-5p ; hsa-mir-6741-3p ; hsa-mir-6890-3p ; hsa-mir-891a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/4020669; hsa-let-7a-1/Downstream/199068;
Nearest TSS
ENST00000422679/Upstream/67862; ENST00000465677/Downstream/78138;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/125997, chr9-CpG: 52/Downstream/46029
Nearby gene
PRPF31(-67862) ; APTX(+62982) ;
Downstream sequence
TAAATTGGTCTGCGCACCAGCACCATGCAA
Junction sequence
TGTGATAGACTGGATTAAGAAAATGTGGCATAAATTGGTCTGCGCACCAGCACCATGCAA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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).
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