Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004997
Fusion event
HBV-PPARGC1A 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
1802
Orient
+
Integrated sequence
ATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGT| |TCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCAT
Host Sequence
Chromosome
chr4
Cytoband
p15.2
Reference genome
Start
End
23881736/23880113 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-421 ; hsa-mir-425-3p ; hsa-mir-378a-5p ; hsa-let-7b-5p ; hsa-mir-130b-3p ; hsa-mir-1277-5p ; hsa-mir-6083 ; hsa-mir-190a-3p ; hsa-mir-4775 ; hsa-mir-3124-3p ; hsa-mir-5011-5p ; hsa-mir-32-3p ; hsa-mir-5585-3p ; hsa-mir-3941 ; hsa-mir-8064 ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-485-3p ; hsa-mir-485-5p ; hsa-mir-130a-3p ; hsa-mir-4311 ; hsa-mir-4524a-3p ; hsa-mir-4524b-3p ; hsa-mir-4668-5p
Nearest miRNA
hsa-mir-12113/Upstream/1364728; hsa-mir-1243/Downstream/640079;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1363688, chr4-CpG: 266/Downstream/589964
Upstream sequence
TTTATGGTACTTATTGTTCTTAAGCTTATCCTCTTAATCTTTTCATGTAAGCAAAGCTCATTAATTTCTGTCTTGGAAATGCTACTACTCTCTTTAATTA
Downstream sequence
tatataatcctatgtaggtacatacacatatatacatatacatgaatatacaGTCTTGTATTGTTTTCGAATTGCTAAGAACTAAAAACATATGCATATA
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).