A curated catalogue of human genomic structural variation




Variant Details

Variant: esv15058



Internal ID11032292
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr5:70791426..71202166hg38UCSC Ensembl
Innerchr5:70087253..70497993hg19UCSC Ensembl
Innerchr5:70123009..70533749hg18UCSC Ensembl
Cytoband5q13.2
Allele length
AssemblyAllele length
hg38410741
hg19410741
hg18410741
Variant TypeCNV gain
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variantsesv22113
Supporting Variantsessv55866, essv79360, essv57946
SamplesNA11993, NA12749, NA12776
Known GenesGTF2H2, GTF2H2B, GTF2H2C, GTF2H2D, LOC647859, NAIP, SERF1A, SERF1B, SMA4, 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)esv15058
Frequency
Sample Size40
Observed Gain3
Observed Loss0
Observed Complex0
Frequencyn/a


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