A curated catalogue of human genomic structural variation




Variant Details

Variant: dgv2380e212



Internal ID20150836
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
chrX:116454112..116457919hg38UCSC Ensembl
chrX:115585278..115589085hg19UCSC Ensembl
CytobandXq23
Allele length
AssemblyAllele length
hg383808
hg193808
Variant TypeCNV loss
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsesv3574387, esv3574391
Samples400247CL, 401020DJ, 401162TM, 400984LD, 400439IM, 401212HJ, 400534ME, 400268SY, 400821FE, 400876OG, 400101EH, 400512LR, 401460LW, 401117NA, 400077EB, 401093VL, 401820SD, 401603HH, 400199SA, 401824MM, 400934LA, 400937OR, 400347VJ, 401136LB, 400627CC, 401926MR, 401842BJ, 400600DP, 401165SB, 401155ML, 401831TW, 400579HJ, 400270BD, 401691HA, 400955BE, 401913GT, 401185LE, 401618HR, 401879HJ, 400844GP, 400686BM, 401606CG, 401812HG, 400211BJ, 401067BD, 400278PD, 401940SJ, 401259LS, 400378HL, 400177CG, 400444MM, 401334DH, 400818BL, 401016IT, 400845ML, 400156WT, 400863SS, 401894PD, 401438HT, 400328LM, 400044HS, 402073LQ, 400106PC, 401354KM, 400266BA, 400209BS, 400238BB, 400138LA, 400234CA
Known GenesSLC6A14
MethodSNP array
AnalysisWe used four separate algorithms to detect CNVs; Affymetrix Chromosome Analysis Suite (ChAS), iPattern, Nexus and Partek. Our primary analysis was performed based on ChAS CNV calls, which were then supported using the remaining three algorithms to construct a confidence set of CNVs. For all algorithms, we have used 8 probes and >1kb as a base line cutoff for CNV detection.
PlatformAffymetrix CytoScan HD 2.7M array
Comments
ReferenceUddin_et_al_2014
Pubmed ID25503493
Accession Number(s)dgv2380e212
Frequency
Sample Size873
Observed Gain0
Observed Loss69
Observed Complex0
Frequencyn/a


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