A curated catalogue of human genomic structural variation




Variant Details

Variant: esv3569572



Internal ID18351084
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr4:86835115..86842299hg38UCSC Ensembl
Innerchr4:87756268..87763452hg19UCSC Ensembl
Cytoband4q21.3
Allele length
AssemblyAllele length
hg387185
hg197185
Variant TypeCNV loss
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variantsdgv1510e212
Supporting Variantsessv9772046, essv9772041, essv9772043, essv9772042, essv9772045
Samples400199SA, 400934LA, 401132CH, 401939GD, 400598DA
Known GenesSLC10A6
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)esv3569572
Frequency
Sample Size873
Observed Gain0
Observed Loss5
Observed Complex0
Frequencyn/a


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