Concept Based Knowledge Discovery From Biomedical Literature
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Advancement in biomedical research and continuous growth of scientific literature available in electronic form, calls for innovative methods and tools for information management, knowledge discovery, and data integration. Many biomedical fields such as genomics, proteomics, metabolomics, genetics, and emerging disciplines like systems biology and conceptual biology require synergy between experimental, computational, data mining and text mining technologies. A large amount of biomedical information available in various repositories, such as the US National Library of Medicine Bibliographic Database, emerge as a potential source of textual data for knowledge discovery. Text mining and its application of natural language processing and machine learning technologies to problems of knowledge discovery, is one of the most challenging fields in bioinformatics. This thesis describes and introduces novel methods for knowledge discovery and presents a software system that is able to extract information from biomedical literature, review interesting connections between various biomedical concepts and in so doing, generates new hypotheses. The experimental results obtained by using methods described in this thesis, are compared to currently published results obtained by other methods and a number of case studies are described. This thesis shows how the technology presented can be integrated with the researchers' own knowledge, experimentation and observations for optimal progression of scientific research.