title: Gene ontology and KEGG enrichment analyses of genes related to age-related macular degeneration.
abstract: Identifying disease genes is one of the most important topics in biomedicine and may facilitate studies on the mechanisms underlying disease. Age-related macular degeneration (AMD) is a serious eye disease; it typically affects older adults and results in a loss of vision due to retina damage. In this study, we attempt to develop an effective method for distinguishing AMD-related genes. Gene ontology and KEGG enrichment analyses of known AMD-related genes were performed, and a classification system was established. In detail, each gene was encoded into a vector by extracting enrichment scores of the gene set, including it and its direct neighbors in STRING, and gene ontology terms or KEGG pathways. Then certain feature-selection methods, including minimum redundancy maximum relevance and incremental feature selection, were adopted to extract key features for the classification system. As a result, 720 GO terms and 11 KEGG pathways were deemed the most important factors for predicting AMD-related genes.
authors.affiliation: Department of Ophthalmology, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China ; Shanghai Key Laboratory of Ocular Fundus Diseases, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China.
authors.forename: Jian
authors.initials: J
authors.lastname: Zhang
authors.affiliation: The Key Laboratory of Stem Cell Biology, Institute of Health Sciences, Shanghai Jiaotong University School of Medicine and Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200025, China.
authors.forename: ZhiHao
authors.initials: Z
authors.lastname: Xing
authors.affiliation: Department of Ophthalmology, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China ; Shanghai Key Laboratory of Ocular Fundus Diseases, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China.
authors.forename: Mingming
authors.initials: M
authors.lastname: Ma
authors.affiliation: Department of Ophthalmology, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China ; Shanghai Key Laboratory of Ocular Fundus Diseases, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China.
authors.forename: Ning
authors.initials: N
authors.lastname: Wang
authors.affiliation: Institute of Systems Biology, Shanghai University, Shanghai 200444, China.
authors.forename: Yu-Dong
authors.initials: YD
authors.lastname: Cai
authors.affiliation: College of Information Engineering, Shanghai Maritime University, Shanghai 201306, China.
authors.forename: Lei
authors.initials: L
authors.lastname: Chen
authors.affiliation: Department of Ophthalmology, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China ; Shanghai Key Laboratory of Ocular Fundus Diseases, Shanghai First People's Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai 200080, China.
authors.forename: Xun
authors.initials: X
authors.lastname: Xu
mesh_terms: D030541:Databases, Genetic; D063990:Gene Ontology; D006801:Humans; D008268:Macular Degeneration / Q000235:genetics* / Q000473:pathology; D053858:Metabolic Networks and Pathways; D008962:Models, Theoretical