Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004777
Fusion event
HBV-RWDD2B 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
507
Orient
-
Integrated sequence
TCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTACCAAGGTATGTTGCCCGTTTGTCCTCTACTTCCAGGAACATCAACTACCAGCAC| |GGGACCATGCAAGACCTGCACGATTCCTGCTCAAGGAACCTCTATGTTTCCCTCTTGTTGCTGTACAAAACCTTCGGACGGAAACTGCACTTGTATTCCC
Host Sequence
Chromosome
chr21
Cytoband
q21.3
Reference genome
Start
End
30388428/29016107 (Hg38)
Orient
+
Location type
Intron
Target gene
Nearest miRNA
hsa-let-7c/Upstream/2062064; hsa-mir-3197/Downstream/1359187;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/13200, chr21-CpG: 44/Downstream/2836
Upstream sequence
CCTCTCCACAGAACAGAGCAGGATTCCTTATTTTGCCATGTAGTTACCTGAATTTAAGTAGTTTAAATATAAGCATTTAAAGTATCATAAAAGATGGTGG
Downstream sequence
GTAGCCTTGataatatttatacatatattaacatatatttattaatatGTCTATTCATGTTTAATTTGAAGTTTTCCTCTTCTAATAACTGTTGGAACTG
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).