Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004788
Fusion event
HBV-PAPLN 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
2454
Orient
-
Integrated sequence
GAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTA| |TCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCA
Host Sequence
Chromosome
chr14
Cytoband
q24.2
Reference genome
Start
End
73711787/73245079 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-664b-5p ; hsa-mir-449b-5p ; hsa-mir-449a ; hsa-mir-34c-5p ; hsa-mir-34a-5p ; hsa-mir-103a-2-5p ; hsa-mir-31-3p ; hsa-mir-378g ; hsa-mir-939-3p ; hsa-mir-4714-3p ; hsa-mir-520f-3p ; hsa-mir-302c-3p ; hsa-mir-7851-3p ; hsa-mir-490-3p ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4786-5p ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-6771-3p ; hsa-mir-1285-3p ; hsa-mir-1292-3p ; hsa-mir-3157-3p ; hsa-mir-3160-3p ; hsa-mir-3187-5p ; hsa-mir-4290 ; hsa-mir-4317 ; hsa-mir-5189-5p ; hsa-mir-612 ; hsa-mir-6512-3p ; hsa-mir-661 ; hsa-mir-6720-5p ; hsa-mir-6860 ; hsa-mir-766-3p ; hsa-mir-874-3p
Nearest miRNA
hsa-mir-208a/Upstream/728181; hsa-mir-1185-1/Downstream/513668;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/5110, chr14-CpG: 58/Downstream/501
Upstream sequence
CCCCTGGTCTCCAGCTCCTGATGCTGCACCGGCCTGCAGTATGGCAGGTGCAGTCAATTTTGCTGGAACTGGTAAATAATCTTCAACCGGCAGTTCCCAA
Downstream sequence
TTCCTGTGGTTTCTTTACCGAGTACAGATGTTCCCCACTTCAAGCGATTTATTAAATGCTTGCTGTGTGTGCTGCACTCCGGCAGGGTCAGTGGAGAAGG
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).