Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015935
Fusion event
HBV-ADH1B 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
1587
Orient
+
Host Sequence
Chromosome
chr4
Cytoband
q23
Reference genome
End
100227882/99306725 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4758-3p ; hsa-mir-3189-5p ; hsa-mir-5699-5p ; hsa-mir-5011-5p ; hsa-mir-4280 ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-4705 ; hsa-mir-4666a-3p ; hsa-mir-5580-3p ; hsa-mir-34b-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-3149 ; hsa-mir-297 ; hsa-mir-568 ; hsa-mir-3924 ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-511-3p
Nearest miRNA
hsa-mir-12113/Upstream/309265; hsa-mir-1243/Downstream/1934070;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/217747, chr4-CpG: 40/Downstream/256845
Upstream sequence
aaaaaaaaaaacaaaaaaaaaCTATGggttgggcacggtggctcatgcctgtaatctcagcactttgggagaccaaggcgggcagttcacttgaagtcag
Downstream sequence
TCTTTACATATTCAAAATATTAAACTAATGCTAGGATTATAGACTTGATTTTAAGACATGGTAGTTAATAGAAAAGTTCTAGATTGAAAACAATTTTGCA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.