A curated catalogue of human genomic structural variation




Variant Details

Variant: esv3578290



Internal ID18359802
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr1:179350733..179369859hg38UCSC Ensembl
Innerchr1:179319868..179338994hg19UCSC Ensembl
Cytoband1q25.2
Allele length
AssemblyAllele length
hg3819127
hg1919127
Variant TypeCNV loss
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variantsdgv121e212
Supporting Variantsessv9797743, essv9797732
Samples401589HP, 401506LK
Known GenesAXDND1, SOAT1
MethodSNP array
AnalysisWe used four separate algorithms to detect CNVs; Affymetrix Chromosome Analysis Suite (ChAS), iPattern, Nexus and Partek. Our primary analysis was performed based on ChAS CNV calls, which were then supported using the remaining three algorithms to construct a confidence set of CNVs. For all algorithms, we have used 8 probes and >1kb as a base line cutoff for CNV detection.
PlatformAffymetrix CytoScan HD 2.7M array
Comments
ReferenceUddin_et_al_2014
Pubmed ID25503493
Accession Number(s)esv3578290
Frequency
Sample Size873
Observed Gain0
Observed Loss2
Observed Complex0
Frequencyn/a


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