A curated catalogue of human genomic structural variation




Variant Details

Variant: essv59964



Internal ID11005859
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr5:70534387..71202166hg38UCSC Ensembl
Innerchr5:69830214..70497993hg19UCSC Ensembl
Innerchr5:69865970..70533749hg18UCSC Ensembl
Cytoband5q13.2
Allele length
AssemblyAllele length
hg38667780
hg19667780
hg18667780
Variant TypeCNV gain
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag1
Merged StatusS
Merged Variantsesv21405
Supporting Variants
SamplesNA18523
Known GenesGTF2H2, GTF2H2B, GTF2H2C, GTF2H2D, GUSBP9, LOC647859, NAIP, SERF1A, SERF1B, SMA4, SMA5, SMN1, SMN2
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)essv59964
Frequency
Sample Size40
Observed Gain1
Observed Loss0
Observed Complex0
Frequencyn/a


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