A curated catalogue of human genomic structural variation

Variant Details

Variant: esv27976

Internal ID11045209
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr1:115592696..116135006hg38UCSC Ensembl
Innerchr1:116135317..116677627hg19UCSC Ensembl
Innerchr1:115936840..116479150hg18UCSC Ensembl
Allele length
AssemblyAllele length
Variant TypeCNV loss
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsesv12135, esv10537, esv15965
SamplesNA18861, NA18523, NA19114, NA11931, NA12828, NA18517, NA19108, NA15510, NA12044, NA12287, NA18508, NA12004, NA12006, NA12239, NA18858, NA18907, NA12749, NA19099, NA12878
Known GenesCASQ2, MAB21L3, NHLH2, SLC22A15, VANGL1
MethodOligo aCGH
AnalysisSegment log2 ratios from each sample. This was done running the GADA algorithm (Pique-Regi et al., 2008) using the options "-M 10 -T 10 -a 2.5". Filter non-CNV segments using intensity thresholds. Merge remaining CNV "calls" within each sample. Adjacent calls of the same direction (gain or loss) are merged if both: the distance between calls is less than 10kb, and the distance between calls is less than 10% of the size of the largest of the two calls.
PlatformSanger H. Sapiens 42mCGH Array 5781_53 726K v1
Pubmed ID19812545
Accession Number(s)esv27976
Sample Size40
Observed Gain0
Observed Loss19
Observed Complex0

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