Simulated data for genomic selection and genome-wide association studies using a combination of coalescent and gene drop methods

Hickey, John M. (author), Gorjanc, Gregor (author)

An approach is described for simulating data sequence, genotype, and phenotype data to study genomic selection and genome-wide association studies (GWAS). The simulation method, implemented in a software package called AlphaDrop, can be used to simulate genomic data and phenotypes with flexibility in terms of the historical population structure, recent pedigree structure, distribution of quantitative trait loci effect, and with sequence and single nucleotide polymorphism-phased alleles and genotypes. Ten replicates of representative scenario used to study genomic selection in livestock were generated and have been made publically available. The simulated data sets were structured to encompass a spectrum of additive quantitative trait loci effect distributions, relastionship structures, and single nucleotide polymorpism chip densities.

• Language: English
• Keywords: genomika, genomska selekcija, genotip, fenotip, simulacije
• Work type: Not categorized
• Typology: 1.03 - Short Scientific Article
• Organization: BF - Biotechnical Faculty
• Year: 2012
• Number of pages: Str. 425-427
• Numbering: Vol. 2, no. 4
• PID: 20.500.12556/RUL-36555
• UDC: 575
• ISSN on article: 2160-1836
• DOI: 10.1534/g3.111.001297
• COBISS.SI-ID: 3034248
• Publication date in RUL: 10.07.2015

Record is a part of a journal

• Title: G3
• Shortened title: G3
• Publisher: Genetics Society of America
• ISSN: 2160-1836
• COBISS.SI-ID: 3033992