A curated catalogue of human genomic structural variation




Variant Details

Variant: esv3580813



Internal ID18709011
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
Innerchr13:92024684..92037389hg38UCSC Ensembl
Innerchr13:92676937..92689642hg19UCSC Ensembl
Cytoband13q31.3
Allele length
AssemblyAllele length
hg3812706
hg1912706
Variant TypeCNV loss
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsessv9804058, essv9804101, essv9804070, essv9804074, essv9804059, essv9804075, essv9804068, essv9804071, essv9804107, essv9804096, essv9804062, essv9804102, essv9804064, essv9804106, essv9804072, essv9804076, essv9804060, essv9804085, essv9804098, essv9804093, essv9804063, essv9804065, essv9804057, essv9804081, essv9804099, essv9804067, essv9804061, essv9804083, essv9804086, essv9804073, essv9804094, essv9804078, essv9804079, essv9804091, essv9804084, essv9804097, essv9804082, essv9804069, essv9804105, essv9804103, essv9804087, essv9804104, essv9804095, essv9804090, essv9804080, essv9804092
Samples400359OR, 401110GJ, 400618GC, 400204SC, 400821FE, 400876OG, 40031BA, 401487FW, 401074CM, 401899MB, 401064FR, 400298ME, 401924ST, 400743LS, 402064DC, 400337HG, 401401BA, 401818PC, 401477ST, 401913GT, 401863BD, 401652HL, 401879HJ, 401419SW, 401630MK, 400724CD, 401346FJ, 401606CG, 401892MJ, 401700BN, 400444MM, 400654YW, 401438HT, 400410CD, 401858TP, 400769SL, 401152MV, 400785AK, 400108BJ, 400084DM, 401177SL, 401040KM, 400833BB, 400508RD, 400581VJ, 401207DA
Known GenesGPC5
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)esv3580813
Frequency
Sample Size873
Observed Gain0
Observed Loss46
Observed Complex0
Frequencyn/a


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