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References
Bairoch. The ENZYME databank in 1995. Nucl Acids Res, 24:221–2222, 1996.
Berlyn, K. Brooks Low, K.E. Rudd, and M. Singer. Linkage map of Escherichia coli K—12, edition 9. In J. Ingraham, E.C.C. Lin, K.B. Low, B. Magasanik, W. Reznikoff, M. Riley, M. Schaechter, and H. E. Umbarger, editors. Escherichia coli and Salmonella, 2nd edition. SM Press, 1996 Neidhardt et al [16] pages 1715–1902.
Blattner, G. Plunkett III, C.A. Bloch, N.T. Perna, V. Burland, M. Riley, J. Collado-Vides, J.D. Glasner, C.K. Rode, G.F. Mayhew, J. Gregor, N.W. Davis, H.A. Kirkpatrick, M.A. Goeden, D.J. Rose, B. Mau, and Y. Shao. The complete genome sequence of Escherichia coli K—12. Science, 277: 1453–1462, 1997.
Cameron and I. Tong. Cellular and metabolic engineering: An overview. Applied Biochemistry and Biotechnology, 38: 105–140, 1993.
J.-F. Tomb et al. The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature, 388539–547, 1997.
Karp. Frame representation and relational data bases: Alternative informationmanagement technologies for systematics. In R. Fortuner, editor, Advanced Computer Methods for Systematic Biology: Artificial Intelligence, Database Systems, Computer Vision, page 560. The Johns Hopkins University Press, 1993.
Karp. The EcoCycuser’s guide.unpublished; see WWW URL ftp://ftp.ai.sri.com/pub/papers/karp-ecocyc-guide.ps.Z, 1996.
Karp and S. Paley. Representations of metabolic knowledge: Pathways. In R. Altman, D. Brutlag, P. Karp, R. Lathrop, and D. Searls, editors, Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pages 203–211, Menlo Park, CA, 1994. AAAI Press.
Karp and S. Paley. Automated drawing of metabolic pathways. In H. Lim, C. Cantor, and R. Robbins, editors, Proceedingsof the Third International Conference on Bioinformatics and Genome Research, pages 225–238. World Scientific Publishing Co., 1995. See also WWW URL ftp://ftp.ai.sri.com/pub/papers/karp-bigr94.ps.Z.
Karp and M. Riley. Representations of metabolic knowledge. In L. Hunter, D. Searls, and J. Shavlik, editors, Proceedingsof the First International Conference on Intelligent Systems for Molecular Biology, pages 207–215, Menlo Park, CA, 1993. AAI Press.
Karp and M. Riley. Guide to the EcoCyc schema. unpublished; see WWW URLftp://ftp.ai.sri.com/pub/papers/karp-ecocycschema.ps, 1996.
Karp, M. Riley, S. Paley, A. Pellegrini-Toole, and M. Krummenacker. EcoCyc: Electronic encyclopedia of E. coli genes and metabolism. Nuc. Acids Res., 25(1):43–50, 1997.
Karp, J.D. Lowrance, T.M. Strat, and D.E. Wilkins. The Grasper-CL graph management system. LISP and Symbolic Computation, 7:245–282, 1994. See also SRI Artificial Intelligence Center Technical Report 52 1.
Karp, C. Ouzounis, and S.M. Paley. HinCyc: A knowledge base of the complete genome and metabolic pathways of H. influenzae. In D.J. States, P. Agarwal, T. Gaasterland, L. Hunter, and R. Smith, editors, Proceedings of the Fourth InternationalConference on Intelligent Systems for Molecular Biology, pages 116–124, Menlo Park, CA, 1996. AAAI Press.
Neidhardt, III R. Curtiss, J. Ingraham, E.C.C. Lin, K.B. Low, B. Magasanik, W. Reznikoff, M. Riley, M. Schaechter, and H. E. Umbarger, editors. Escherichia coli and Salmonella, 2nd edition. ASM Press, 1996.
Paley and P. Karp. GKB Editor user manual. Available via WWW URL http://www.ai.sri.com/~gkb/user-man.html, 1996.
Paley and P.D. Karp. Adapting EcoCyc for use on the World Wide Web. Gene, 172(1):GC43–50, 1996.
Suzanne M. Paley, John D. Lowrance, and Peter D. Karp. A generic knowledgebase browser and editor. In Proceedings of the 1997 National Conference on Artificial Intelligence, 1997.
Riley. Functions of the gene products of Escherichia coli. Microbiological Reviews, 57:862–952, 1993.
Edwin C. Webb. Enzyme Nomenclature, 1992: Recommendations of the nomenclature committee of the International Union of Biochemistry and Molecular Biology on the nomenclature and classification of enzymes. Academic Press, 1992.
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Karp, P.D., Riley, M. (2002). EcoCyc: The Resource and the Lessons Learned. In: Letovsky, S. (eds) Bioinformatics: Databases and Systems. Springer, Boston, MA. https://doi.org/10.1007/0-306-46903-0_5
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DOI: https://doi.org/10.1007/0-306-46903-0_5
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