A curated catalogue of human genomic structural variation




Variant Details

Variant: essv9812900



Internal ID18284569
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr1:248590032..248664922hg38UCSC Ensembl
Innerchr1:248753333..248828223hg19UCSC Ensembl
Cytoband1q44
Allele length
AssemblyAllele length
hg3874891
hg1974891
Variant TypeCNV loss
Copy Number1
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusS
Merged Variantsesv3578559
Supporting Variants
Samples400158FB
Known GenesOR2T10, OR2T11, OR2T27, OR2T35
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
CommentsNumber of probes=58
ReferenceUddin_et_al_2014
Pubmed ID25503493
Accession Number(s)essv9812900
Frequency
Sample Size873
Observed Gain0
Observed Loss1
Observed Complex0
Frequencyn/a


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