A curated catalogue of human genomic structural variation




Variant Details

Variant: dgv1n30



Internal ID20133243
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
chrX:7824572..8147412hg38UCSC Ensembl
chrX:7792613..8115453hg19UCSC Ensembl
chrX:7752613..8075453hg18UCSC Ensembl
CytobandXp22.31
Allele length
AssemblyAllele length
hg38322841
hg19322841
hg18322841
Variant TypeCNV gain
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsnsv470338, nsv470339
SamplesHGDP00462, HGDP00984
Known GenesMIR651, PNPLA4, VCX
MethodSNP array
AnalysisWe used the previously validated default quality control criteria, excluding samples with a log R ratio standard deviation of >0.28, a median B allele frequency of >0.55 or <0.45, or a B allele frequency drift of >0.002 (for more details see Wang et al. 2007). As the PennCNV algorithm is more sensitive and specific to CNVs covering greater numbers of SNPs in the HumanHap550 array, use of a minimum number of SNPs in CNV detection increases the reliability of CNV calls (with a consequent reduction in calls per individual). We set 10 SNPs as the minimum detection threshold in the algorithm.
PlatformIllumina HumanHap550 Genotyping BeadChip v3
Comments
ReferenceJakobsson_et_al_2008
Pubmed ID18288195
Accession Number(s)dgv1n30
Frequency
Sample Size443
Observed Gain2
Observed Loss0
Observed Complex0
Frequencyn/a


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