title: GenePANDA-a novel network-based gene prioritizing tool for complex diseases.
abstract: Here we describe GenePANDA, a novel network-based tool for prioritizing candidate disease genes. GenePANDA assesses whether a gene is likely a candidate disease gene based on its relative distance to known disease genes in a functional association network. A unique feature of GenePANDA is the introduction of adjusted network distance derived by normalizing the raw network distance between two genes with their respective mean raw network distance to all other genes in the network. The use of adjusted network distance significantly improves GenePANDA's performance on prioritizing complex disease genes. GenePANDA achieves superior performance over five previously published algorithms for prioritizing disease genes. Finally, GenePANDA can assist in prioritizing functionally important SNPs identified by GWAS.
authors.affiliation: State Key Laboratory of Genetic Engineering and Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200436, P. R. China.|Department of Biostatistics and Computational Biology, School of Life Sciences, Fudan University, Shanghai 200436, P. R. China.
authors.forename: Tianshu
authors.initials: T
authors.lastname: Yin
authors.affiliation: State Key Laboratory of Genetic Engineering and Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200436, P. R. China.|National Center for International Research of Development and Disease, Institute of Developmental Biology and Molecular Medicine, Fudan University, Shanghai 200433, P. R. China.
authors.forename: Shu
authors.initials: S
authors.lastname: Chen
authors.affiliation: State Key Laboratory of Genetic Engineering and Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200436, P. R. China.|National Center for International Research of Development and Disease, Institute of Developmental Biology and Molecular Medicine, Fudan University, Shanghai 200433, P. R. China.
authors.forename: Xiaohui
authors.initials: X
authors.lastname: Wu
authors.affiliation: State Key Laboratory of Genetic Engineering and Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200436, P. R. China.|Department of Biostatistics and Computational Biology, School of Life Sciences, Fudan University, Shanghai 200436, P. R. China.
authors.forename: Weidong
authors.initials: W
authors.lastname: Tian
mesh_terms: D019295:Computational Biology / Q000379:methods*; D053263:Gene Regulatory Networks; D020022:Genetic Predisposition to Disease; D055106:Genome-Wide Association Study / Q000379:methods*; D006801:Humans