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Available in PDF In this issue... DOE '99 Oakland Highlights Genome Project In the News Microbial Genomics Ethical, Legal, and Social Issues Informatics Web, Other Resources, Publications Funding Meeting Calendars & Acronyms |
Microbial GenomicsDeveloping EcoCycThe EcoCyc project was conceived in 1990 by Peter Karp (then at SRI International) and Monica Riley (Marine Biological Laboratory) to provide a central, integrative resource for the quickly changing knowledge about E.coli's genes and metabolism. Karp's group developed Pathway Tools, a software environment that included but went beyond genome sequence data by integrating richly curated information on gene function and pathways. Riley's group searched the biomedical literature for material on E.coli enzymes and pathways. An early task was to determine what to gather about each enzyme and pathway and to design a database schema that would accommodate that information. Riley published a system for categorizing E.coli genes according to their function; this and other similar systems have since been used by genome project researchers to classify their annotated genes. Kenneth Rudd (National Center for Biotechnology Information) contributed his collection of all known E.coli DNA sequences and assembled them into an ordered set of maximal sequences that were pinned to the Kohara physical restriction map of the E.coli chromosome. After Fred Blattner's group at the University of Wisconsin completed E.coli's DNA sequence, the data were integrated into EcoCyc. The electronic form of the newsletter may be cited in the following
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