Dr Ingrid M Keseler

Current Projects

	BioCyc Database Collection The BioCyc Database Collection is a collection of Pathway/Genome Databases. Each database in the BioCyc collection describes the genome and metabolic pathways of a single organism, with the exception of the MetaCyc database, which is a reference source on metabolic pathways from hundreds of organisms.
	EcoCyc: Encyclopedia of Escherichia coli Genes and Metabolism EcoCyc is a bioinformatics database that describes the genome and the biochemical machinery of E. coli. The long-term goal of the project is to describe the molecular catalog of the E. coli cell, as well as the functions of each of its molecular parts, to facilitate a system-level understanding of E. coli.

Publications

The following are in reverse chronological order of publication.
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• Hu, J.C. and Karp, P.D. and Keseler, I.M. and Krummenacker, M. and Siegele, D.A. What we can learn about Escherichia coli through application of Gene Ontology. Trends in Microbiology, vol. 17, no. 7, pp. 269-278, July 2009.  [Details]

• Keseler, I.M. and Bonavides-Martinez, C. and Collado-Vides, J. and Gama-Castro, S. and Gunsalus, R.P. and Johnson, D.A. and Krummenacker, M., and Nolan, L.M. and Paley, S. and Paulsen, I.T. and Peralta-Gil, M. and Santos-Zavaleta, A. and Shearer, A.G. and Karp, P.D. EcoCyc: a comprehensive view of Escherichia coli biology. Nucleic Acids Research, vol. 37, pp. D464-D470, Jan 2009.  [PDF, Details]

• Karp, P.D. and Keseler, I.M. and Shearer, A. and Latendresse, M. and Krummenacker, M. and Paley, S.M. and Paulsen, I. and Collado-Vides, J. and Gama-Castro, S. and Peralta-Gil, M. and Santos-Zavaleta, A. and Penaloza-Spinola, M.I. and Bonavides-Martinez, C. and Ingraham, J. Multidimensional annotation of the Escherichia coli K-12 genome. Nucleic Acids Research, vol. 35, no. 22, pp. 7577-7590, 2007.  [PDF, Details]

• Riley, M., and Abe, T., and Arnaud, M.B., and Berlyn, M.K.B., and Blattner, F.R., and Chaudhuri, R.R., and Glasner, J.D., and Horiuchi, T., and Keseler, I.M., and Kosuge, T., and Mori, H., and Perna, N.T., and Plunkett, G.3rd, and Rudd, K.E., and Serres, M.H., and Thomas, G.H., and Thomson, N.R., and Wishart, D., and Wanner, B.L. Escherichia coli K-12: a cooperatively developed annotation snapshot – 2005. Nucleic Acids Research, vol. 34, no. 1, pp. 1-9, 2006.  [PDF, Details]

• Keseler, I.M. and Collado-Vides, J. and Gama-Castro, S. and Ingraham, J. and Paley, S. and Paulsen, I.T. and Peralta-Gil, M. and Karp, P.D. EcoCyc: a comprehensive database resource for Escherichia coli. Nucleic Acids Research, vol. 33, pp. D334-D337, Jan 2005.  [PDF, Details]