A curated catalogue of human genomic structural variation




Variant Details

Variant: essv56561



Internal ID11340649
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr10:46870090..46992653hg38UCSC Ensembl
Innerchr10:46559811..46682371hg19UCSC Ensembl
Innerchr10:45979817..46102377hg18UCSC Ensembl
Cytoband10q11.21
Allele length
AssemblyAllele length
hg38122564
hg19122561
hg18122561
Variant TypeCNV gain
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag1
Merged StatusS
Merged Variantsesv13211
Supporting Variants
SamplesNA12776
Known GenesFRMPD2P1, PTPN20A, PTPN20B
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
Comments
ReferenceConrad_et_al_2009
Pubmed ID19812545
Accession Number(s)essv56561
Frequency
Sample Size40
Observed Gain1
Observed Loss0
Observed Complex0
Frequencyn/a


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