Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005236
Fusion event
HBV-CD163 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
2326
Orient
+
Integrated sequence
TTTTGGAAGAGAAACTGTTCTTGAGTATTTGGTGTCTTTTGGAGTGTGGATTCGCACTCCTCCCGCTTACAGACCACCAAATGCCCCTATCTTATCAACA| |CTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGAT
Host Sequence
Chromosome
chr12
Cytoband
p13.31
Reference genome
Start
End
7646058/7493462 (Hg38)
Orient
-
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-141/Upstream/529271; hsa-let-7i/Downstream/1746005;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/53028, chr12-CpG: 23/Downstream/134945
Upstream sequence
tccaaggaactcactgagctgcggggtggcttatccttcctgtccggtaggatttgatacttactGCAGCAAATCTATTCTGGATGTTTCTTGGTGACAA
Downstream sequence
CAGAGACACCAAAACAGCCTTAAACTGCTTATCTATTTGACTAATTTTAAATGAGAAAAAGTGAACACTGTCTTTCTTCAGTCACTATTATTTGTTTCTC
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).