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Structured Representation of Biomedical Experiments: A Bottom-Up Approach

Scientific publications are currently the only means to disseminate the details of biomedical experiments across the life sciences research community. With the ever increasing volume of scientific publications, life scientists and curators of life science knowledge bases are often confronted with the daunting task of sifting through hundreds of relevant publications to apprise themselves of the latest experimental techniques and research findings in their area of interest. The use of concise, structured annotations to describe the salient features of experiments would alleviate this difficulty. For this purpose, minimum information standards and controlled vocabularies for experiment representation are in development to be used by biologists to annotate their experiments. This paper presents the initial results from a methodology to manually annotate descriptions of experiments in scientific publications; and discusses the utility of these annotations in a bottom-up approach to creating an ontology of biomedical experiments.