Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015969
Fusion event
HBV-AKAP12 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
1809
Orient
+
Host Sequence
Chromosome
chr6
Cytoband
q25.1
Reference genome
End
151657080/151335945 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-183-5p ; hsa-mir-186-5p ; hsa-mir-1-3p ; hsa-mir-877-3p ; hsa-mir-181a-5p ; hsa-mir-8057 ; hsa-mir-760 ; hsa-mir-6822-3p ; hsa-mir-20b-3p ; hsa-mir-3137 ; hsa-mir-365b-3p ; hsa-mir-365a-3p ; hsa-mir-592 ; hsa-mir-6867-5p ; hsa-mir-597-5p ; hsa-mir-3935 ; hsa-mir-335-5p ; hsa-mir-577 ; hsa-mir-29b-1-5p ; hsa-mir-4766-5p ; hsa-mir-451b
Nearest miRNA
hsa-mir-10398/Upstream/233169; hsa-mir-1202/Downstream/3517415;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/10122, chr6-CpG: 42/Downstream/5525
Nearest cancer related gene
AKAP12(TSG, No orient, 0)
Upstream sequence
ATGCCCACTTTTGTTTGTGTGCATAGAAAAAAAAATGCATCTTACACCATCCATGTCAATTTTTTTTCAATTATGTGTACACAGGACCTATTTGGTTGGC
Downstream sequence
cagtgtctattatttccatctttatgtccctgtgtactcattggttagctaccatttatgagaatatgcagcattttactttctgtttctgagttatttt
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.