A curated catalogue of human genomic structural variation

Variant Details

Variant: esv25198

Internal ID11042431
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr8:12297564..12695622hg38UCSC Ensembl
Innerchr8:12155035..12553131hg19UCSC Ensembl
Innerchr8:12199406..12597502hg18UCSC Ensembl
Allele length
AssemblyAllele length
Variant TypeCNV gain+loss
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsesv18106, esv19925, esv17192, esv16716, esv20471, esv20414, esv20244, esv17812, esv17714, esv13699, esv18471, esv18357, esv17905, esv13360, esv10512, esv16530, esv16613
SamplesNA12489, NA18861, NA07037, NA18523, NA19114, NA11931, NA12828, NA18517, NA12776, NA19257, NA19108, NA15510, NA18505, NA12044, NA12287, NA19147, NA12414, NA18508, NA11894, NA11995, NA18916, NA19190, NA12006, NA07045, NA12239, NA19129, NA06985, NA18502, NA18858, NA18907, NA18909, NA12749, NA12156, NA19099, NA12878, NA19225, NA19240
Known GenesDEFB109P1, DEFB130, FAM66A, FAM86B2, FAM90A25P, LOC100133267, LOC100506990, LOC649352, LOC729732
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)esv25198
Sample Size40
Observed Gain35
Observed Loss12
Observed Complex0

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