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This article is part of the supplement: Proceedings of the 15th European workshop on QTL mapping and marker assisted selection (QTLMAS)

Open Access Proceedings

XVth QTLMAS: simulated dataset

Jean-Michel Elsen1*, Simon Tesseydre1, Olivier Filangi23, Pascale Le Roy23 and Olivier Demeure23

Author Affiliations

1 INRA UR0631 SAGA, chemin de borde rouge, BP 52627, 31326 Castanet-Tolosan, France

2 INRA, UMR1348 PEGASE, Domaine de la Prise, 35590 Saint-Gilles, France

3 Agrocampus Ouest, UMR1348 PEGASE, 65 rue de St Brieuc, 35042 Rennes, France

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BMC Proceedings 2012, 6(Suppl 2):S1  doi:10.1186/1753-6561-6-S2-S1

Published: 21 May 2012

Abstract

Background

Our aim was to simulate the data for the QTLMAS2011 workshop following a pig-type family structure under an oligogenic model, each QTL being specific.

Results

The population comprised 3000 individuals issued from 20 sires and 200 dams. Within each family, 10 progenies belonged to the experimental population and were assigned phenotypes and marker genotypes and 5 belonged to the selection population, only known on their marker genotypes. A total of 10,000 SNPs carried by 5 chromosomes of 1 Morgan each were simulated. Eight QTL were created (1 quadri-allelic, 2 linked in phase, 2 linked in repulsion, 1 imprinted and 2 epistatic). Random noise was added giving an heritability of 0.30. The marker density, LD and MAF were similar to real life parameters.