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Keynote

Mining the biomedical literature: challenges, advances and open problems

Rezarta Islamaj Doğan

National Institutes of Health, National Library of Medicine

Abstract: The vast biomedical literature embodies our knowledge of biological systems. Scientific techniques that investigate biological systems are developed continuously and this results in ever-growing amounts of biological data, which, in turn, induces an overwhelming increase in the number of publications interpreting the new findings. For a researcher with a specific task at hand, the ability to survey the related literature effectively is a necessary step both for design of the experiment and for the analysis of the results of the experiment. An automated literature survey is thus an indispensable tool. Such a tool also provides the means for the timely curation of biomedical knowledge already accumulated in the public databases, such as PubMed. The PubMed database is a service of the National Library of Medicine and it provides free access to more than 20 million biomedical citations, from more than 5000 journals published in the United States and other countries. In this talk I will give an overview to PubMed and the related services, emphasizing the on-going research on biomedical text mining. I will describe our findings on usage patterns and our recent work to improve the accuracy of the system. I will also present various general-purpose and domain-specific text mining methods that we have employed successfully and point out the challenges to realizing effective solutions.

Bio:

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