Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004850
Fusion event
HBV-ZEB1 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
1820
Orient
+
Integrated sequence
GTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAAC| |TTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAA
Host Sequence
Chromosome
chr10
Cytoband
p11.22
Reference genome
Start
End
31784891/31495962 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-141-3p ; hsa-mir-429 ; hsa-mir-200c-3p ; hsa-mir-205-5p ; hsa-mir-200a-3p ; hsa-mir-200b-3p ; hsa-mir-150-5p ; hsa-mir-130b-3p ; hsa-mir-335-5p ; hsa-mir-101-3p ; hsa-mir-23b-3p ; hsa-mir-591 ; hsa-mir-629-5p ; hsa-mir-203a-3p ; hsa-mir-494-3p ; hsa-mir-539-5p ; hsa-mir-655-3p ; hsa-mir-1236-3p ; hsa-mir-183-5p ; hsa-mir-96-5p ; hsa-mir-142-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-6867-5p ; hsa-mir-133a-3p ; hsa-mir-144-3p ; hsa-mir-590-3p ; hsa-mir-409-3p ; hsa-mir-33b-5p ; hsa-mir-484 ; hsa-mir-652-3p ; hsa-mir-10b-5p ; hsa-mir-223-3p ; hsa-mir-455-3p ; hsa-mir-19a-5p ; hsa-mir-19b-1-5p ; hsa-mir-19b-2-5p ; hsa-mir-2052 ; hsa-mir-3149
Nearest miRNA
hsa-mir-1265/Upstream/1127297; hsa-mir-107/Downstream/3583636;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/174797, chr10-CpG: 60/Downstream/107299
Upstream sequence
TACCATAGCCTTTAAAAGAAGGTCTTTGTGTCACTGATTTCGCATTTGTGAGTCCTGAATTTAGTCCGTTTCCTTCTCTTTTATCTTACCTTCCTTAAAT
Downstream sequence
GTTTAAGTACTTAGGCATATGGTGCACTACATAAAAAGAAGTAAATATTCCTTAAATACAGAGTAACTTACAGATTCATATTATGTAGCAGATTTCTCCA
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).