The analysis of microarrays in different skeletal muscles of the hind legs of splay leg piglets aimed at the generation of a list of genes differentially expressed between affected and healthy muscle. We initially selected two muscles involved in adduction of the hind legs (Mm. adductores, M. gracilis) for the analysis of gene expression profiles immediately after birth. Additionally, we investigated a muscle involved in abduction (M. sartorius) in order to detect more generalized defects in functional differing muscles of the hind leg.