CHRNA6 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002493
Fusion event
HBV-CHRNA6 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr8
Cytoband
p11.21
Reference genome
GRCh37/hg19
Start
42629631/42774488 (Hg38)
End
42629631/42774488 (Hg38)
Location type
Promoter
Target gene
CHRNA6
miRNAs that regulate target gene
hsa-mir-3591-5p ; hsa-mir-4474-3p ; hsa-mir-142-3p ; hsa-mir-644a ; hsa-mir-648
Nearest miRNA
hsa-mir-124-1/Upstream/1113980; hsa-mir-10400/Downstream/121709;
Nearest TSS
ENST00000518652/Upstream/5702; ENST00000527306/Downstream/21904;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/232436, chr8-CpG: 63/Downstream/68238
Upstream sequence
ACATACAATTTATGTACTTCAAAATCAGAATATAAAGTATTCTTTTTTTACCACAATTATTTGGACATTAAAGATTCCTTTGCTTTAAGGTTTTAAAGCA
Downstream sequence
GAGAGCCTTCTATCAATAATAACCTTCTATTATTTCCCTCCAGCCTTTAACAAACATCTCTGGGCCTTTCAAGGTAGAATGAAATGTGCCTAAATTTTAA
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
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