Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004911
Fusion event
HBV-AP1G1 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
1573
Orient
+
Integrated sequence
TTGGGGCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGG| |ACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTC
Host Sequence
Chromosome
chr16
Cytoband
q22.2
Reference genome
Start
End
71817860/71783957 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-186-5p ; hsa-mir-145-5p ; hsa-mir-101-3p ; hsa-mir-93-5p ; hsa-mir-652-3p ; hsa-mir-484 ; hsa-mir-106b-5p ; hsa-mir-379-3p ; hsa-mir-411-3p ; hsa-mir-20a-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-513a-5p ; hsa-mir-3927-5p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-7151-5p ; hsa-mir-2681-3p ; hsa-mir-96-3p ; hsa-mir-2681-5p ; hsa-mir-582-5p ; hsa-mir-486-3p ; hsa-mir-3945 ; hsa-mir-545-5p ; hsa-mir-3675-5p ; hsa-mir-576-3p ; hsa-mir-144-3p ; hsa-mir-3133 ; hsa-mir-622 ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-920 ; hsa-mir-6726-5p ; hsa-mir-5591-5p ; hsa-mir-4300 ; hsa-mir-4487 ; hsa-mir-5681a ; hsa-mir-4744 ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-17-5p ; hsa-mir-3194-5p ; hsa-mir-421 ; hsa-mir-4709-5p ; hsa-mir-6849-3p ; hsa-mir-6858-3p
Nearest miRNA
hsa-mir-1225/Upstream/1753535; hsa-mir-11401/Downstream/5084979;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/59694, chr16-CpG: 91/Downstream/24063
Upstream sequence
accacacaggacaaaaaagaacacatctgtggaagaatttggccccgagccaccagttttctactcctgCAATCTACCTACTTATCTTTAGATAATTCAT
Downstream sequence
TAATATTTCTGGGTTGTGCTTAACCTACACACGCAAAAGGTTACACACActacaggaaatctatcaccacttttgttataaaaatgctgaggatactgtc
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).