A curated catalogue of human genomic structural variation




Variant Details

Variant: essv48158



Internal ID10977415
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr6:29845969..29955474hg38UCSC Ensembl
Innerchr6:29813746..29923251hg19UCSC Ensembl
Innerchr6:29921725..30031230hg18UCSC Ensembl
Cytoband6p21.33
Allele length
AssemblyAllele length
hg38109506
hg19109506
hg18109506
Variant TypeCNV gain
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag1
Merged StatusS
Merged Variantsesv17468
Supporting Variants
SamplesNA07037
Known GenesHCG4B, HLA-A, HLA-H
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)essv48158
Frequency
Sample Size40
Observed Gain1
Observed Loss0
Observed Complex0
Frequencyn/a


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