Article (Scientific journals)
LDSO: A program to simulate pedigrees and molecular information under various evolutionary forces
Ytournel, F.; Teyssèdre, S.; Roldan, D. et al.
2012In Journal of Animal Breeding and Genetics, 129 (5), p. 417-421
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Keywords :
Epistasis; Linkage disequilibrium; Real pedigree; Selection; Simulation program
Abstract :
[en] Simulations are a major tool to evaluate new statistical methods and optimize experimental designs in the genomic era. However, this can only be achieved when the simulations are close enough to reality, as well as diverse enough to be realistic. For mapping studies, it is thus critical to re-create as much as possible the forces generating linkage (mutation, random drift, changes in population sizes, selection and pedigree structure) and the mechanisms producing trait genetic architecture (additivity, dominance, epistasis). We present here a computer program (ldso) simulating these phenomena. Optional outputs provide statistics on the linkage disequilibrium (LD) structure and the identity by descent between chromosomal segments, facilitating further data analyses. Furthermore, ldso enables the simulation of genomic data in known pedigrees, which sticks as precisely as possible to recent population history and structures of the long-range LD, allowing optimization of fine-mapping strategies. © 2012 Blackwell Verlag GmbH.
Disciplines :
Animal production & animal husbandry
Genetics & genetic processes
Author, co-author :
Ytournel, F.;  INRA, Génétique Animale et Biologie Intégrative, Jouy-en-Josas, France, Department of Animals Sciences, Animal Breeding and Genetics Group, Göttingen, Germany
Teyssèdre, S.;  INRA, Station d'Amélioration Génétique des Animaux, Castanet Tolozan, France
Roldan, D.;  INRA, Station d'Amélioration Génétique des Animaux, Castanet Tolozan, France
Erbe, M.;  Department of Animals Sciences, Animal Breeding and Genetics Group, Göttingen, Germany
Simianer, H.;  Department of Animals Sciences, Animal Breeding and Genetics Group, Göttingen, Germany
Boichard, D.;  INRA, Génétique Animale et Biologie Intégrative, Jouy-en-Josas, France
Gilbert, H.;  INRA, Génétique Animale et Biologie Intégrative, Jouy-en-Josas, France
Druet, Tom ;  Université de Liège - ULiège > Département de productions animales > GIGA-R : Génomique animale
Legarra, A.;  INRA, Station d'Amélioration Génétique des Animaux, Castanet Tolozan, France
Language :
English
Title :
LDSO: A program to simulate pedigrees and molecular information under various evolutionary forces
Publication date :
2012
Journal title :
Journal of Animal Breeding and Genetics
ISSN :
0931-2668
eISSN :
1439-0388
Publisher :
Blackwell Publishing, Berlin, Germany
Volume :
129
Issue :
5
Pages :
417-421
Peer reviewed :
Peer Reviewed verified by ORBi
Available on ORBi :
since 23 January 2013

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