title: Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes.
abstract: Genome-wide experimental methods to identify disease genes, such as linkage analysis and association studies, generate increasingly large candidate gene sets for which comprehensive empirical analysis is impractical. Computational methods employ data from a variety of sources to identify the most likely candidate disease genes from these gene sets. Here, we review seven independent computational disease gene prioritization methods, and then apply them in concert to the analysis of 9556 positional candidate genes for type 2 diabetes (T2D) and the related trait obesity. We generate and analyse a list of nine primary candidate genes for T2D genes and five for obesity. Two genes, LPL and BCKDHA, are common to these two sets. We also present a set of secondary candidates for T2D (94 genes) and for obesity (116 genes) with 58 genes in common to both diseases.
authors.affiliation: South African National Bioinformatics Institute, University of the Western Cape, Bellville, 7535, South Africa. nicki@sanbi.ac.za
authors.forename: Nicki
authors.initials: N
authors.lastname: Tiffin
authors.forename: Euan
authors.initials: E
authors.lastname: Adie
authors.forename: Frances
authors.initials: F
authors.lastname: Turner
authors.forename: Han G
authors.initials: HG
authors.lastname: Brunner
authors.forename: Marc A
authors.initials: MA
authors.lastname: van Driel
authors.forename: Martin
authors.initials: M
authors.lastname: Oti
authors.forename: Nuria
authors.initials: N
authors.lastname: Lopez-Bigas
authors.forename: Christos
authors.initials: C
authors.lastname: Ouzounis
authors.forename: Carolina
authors.initials: C
authors.lastname: Perez-Iratxeta
authors.forename: Miguel A
authors.initials: MA
authors.lastname: Andrade-Navarro
authors.forename: Adebowale
authors.initials: A
authors.lastname: Adeyemo
authors.forename: Mary Elizabeth
authors.initials: ME
authors.lastname: Patti
authors.forename: Colin A M
authors.initials: CA
authors.lastname: Semple
authors.forename: Winston
authors.initials: W
authors.lastname: Hide
mesh_terms: D019295:Computational Biology / Q000379:methods*; D003924:Diabetes Mellitus, Type 2 / Q000235:genetics*; D005796:Genes; D008040:Genetic Linkage; D020022:Genetic Predisposition to Disease; D006801:Humans; D020407:Internet; D009765:Obesity / Q000235:genetics*; D012984:Software