title: Survey of Natural Language Processing Techniques in Bioinformatics.
abstract: Informatics methods, such as text mining and natural language processing, are always involved in bioinformatics research. In this study, we discuss text mining and natural language processing methods in bioinformatics from two perspectives. First, we aim to search for knowledge on biology, retrieve references using text mining methods, and reconstruct databases. For example, protein-protein interactions and gene-disease relationship can be mined from PubMed. Then, we analyze the applications of text mining and natural language processing techniques in bioinformatics, including predicting protein structure and function, detecting noncoding RNA. Finally, numerous methods and applications, as well as their contributions to bioinformatics, are discussed for future use by text mining and natural language processing researchers.
authors.affiliation: College of Computer and Information Engineering, Xiamen University of Technology, Xiamen 361024, China.
authors.forename: Zhiqiang
authors.initials: Z
authors.lastname: Zeng
authors.affiliation: College of Computer and Information Engineering, Xiamen University of Technology, Xiamen 361024, China.
authors.forename: Hua
authors.initials: H
authors.lastname: Shi
authors.affiliation: College of Computer and Information Engineering, Xiamen University of Technology, Xiamen 361024, China.
authors.forename: Yun
authors.initials: Y
authors.lastname: Wu
authors.affiliation: Software School, Xiamen University, Xiamen 361005, China.
authors.forename: Zhiling
authors.initials: Z
authors.lastname: Hong
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods*; D057225:Data Mining / Q000379:methods; D016208:Databases, Factual; D030541:Databases, Genetic; D030562:Databases, Protein; D006801:Humans; D009323:Natural Language Processing; D060066:Protein Interaction Maps; D039781:PubMed; D022661:RNA, Untranslated / Q000737:chemistry / Q000235:genetics; D016415:Sequence Alignment; D011795:Surveys and Questionnaires
chemical_list: D022661:RNA, Untranslated