Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006144
Fusion event
HBV-PCDH7 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
99
Orient
-
Integrated sequence
CTCCACAACATTCCACCAAGCTCTGCTAGATCCCAGAGTGAGGGGCCTATATTTTCCTGCTGGTGGCTCCAGTTCCGGAACAGTAAACCCTGTTCCGAC| |TACTGCCTCACCCATATCGTCAATCTTCTCGAGGACTGGGGACCCTGCACAGAACATGGAGAGCACAACATCAGGATTCCTAGGACCCCTGCTCGTGTTA
Host Sequence
Chromosome
chr4
Cytoband
p15.1
Reference genome
Start
End
30913841/30912219 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-192-5p ; hsa-mir-25-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-4261 ; hsa-mir-3688-3p ; hsa-mir-4789-3p ; hsa-mir-8076 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-8485 ; hsa-mir-329-3p ; hsa-mir-6720-5p ; hsa-mir-1277-5p ; hsa-mir-6512-3p ; hsa-mir-190a-3p ; hsa-mir-338-3p ; hsa-mir-4530 ; hsa-mir-5011-5p
Nearest miRNA
hsa-mir-12113/Upstream/2092551; hsa-mir-1243/Downstream/5514147;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/188999, chr4-CpG: 100/Downstream/5331790
Upstream sequence
tgggccaggtgttccttgccctcattcccataaacccacaaacttccggtgtggctgttagggccattatgaacatgttacagtgctgcagagattttgt
Downstream sequence
CTAACTAAAGTTTGTTTCAGAGTTCTGCCAGATATAGTCCAACTAATGCACTATGGAATCCTAAATATGTTTGTTCAATAGCCACTGACACTGGTTGAGA
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).