Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016011
Fusion event
HBV-ITCH integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1826
Orient
-
Host Sequence
Chromosome
chr20
Cytoband
q11.22
Reference genome
Start
End
32986825/34399019 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-324-3p ; hsa-mir-127-5p ; hsa-mir-541-5p ; hsa-mir-485-5p ; hsa-mir-20a-5p ; hsa-mir-302c-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-3143 ; hsa-mir-8068 ; hsa-mir-1252-5p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-543 ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-214-5p ; hsa-mir-3653-3p ; hsa-mir-6796-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/349829; hsa-mir-1-1/Downstream/67306;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/34856, chr20-CpG: 43/Downstream/117288
Upstream sequence
tttacttatttatttattctgtagagttggggtctctgtcactatattggccaggctggtctcgagctcctgggctcaagcgatcctcctatcttgaccc
Downstream sequence
CAGttatagtatttgttttattgtaagctgcctcaatgcctttctagaatcaagtaaggaataaataTGCAAGTGTAAAAAATGAATGTCAggctgggcg
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.