GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data

  • Authors:

  • Andrey Rzhetsky;Ivan Iossifov;Tomohiro Koike;Michael Krauthammer;Pauline Kra;Mitzi Morris;Hong Yu;Pablo Ariel Duboué;Wubin Weng;W. John Wilbur;Vasileios Hatzivassiloglou;Carol Friedman

  • Affiliations:

  • Columbia Genome Center, Columbia University, New York, NY and Department of Biomedical Informatics, Columbia University, New York, NY and Center for Computational Biology and Bioinformatics (2B2), ...;Columbia Genome Center, Columbia University, New York, NY and Department of Biomedical Informatics, Columbia University, New York, NY;Hitachi Software Engineering Co., Ltd., Yokohama, Japan;Department of Biomedical Informatics, Columbia University, New York, NY;Department of Biomedical Informatics, Columbia University, New York, NY;Columbia Genome Center, Columbia University, New York, NY;Department of Computer Science, Columbia University, New York, NY;Department of Computer Science, Columbia University, New York, NY;Department of Computer Science, Columbia University, New York, NY;National Center for Biotechnology Information, NLM, NIH, Bethesda, MD;Department of Computer Science, Columbia University, New York, NY;Department of Biomedical Informatics, Columbia University, New York, NY

  • Venue:
  • Journal of Biomedical Informatics
  • Year:
  • 2004

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Abstract

The immense growth in the volume of research literature and experimental data in the field of molecular biology calls for efficient automatic methods to capture and store information. In recent years, several groups have worked on specific problems in this area, such as automated selection of articles pertinent to molecular biology, or automated extraction of information using natural-language processing, information visualization, and generation of specialized knowledge bases for molecular biology. GeneWays is an integrated system that combines several such subtasks. It analyzes interactions between molecular substances, drawing on multiple sources of information to infer a consensus view of molecular networks. GeneWays is designed as an open platform, allowing researchers to query, review, and critique stored information.