SRI International
Room AE215
333 Ravenswood Avenue
Menlo Park, CA 94025-3493
USA
Phone: (650) 859-4013
Fax: (650) 859-3735
Home Page: http://www.ai.sri.com/~latendre
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Pathway ToolsPathway Tools is a systems biology software system that supports several use cases: Development of organism-specific database that integrate many bioinformatics datatypes, from genomes to pathways. Development of metabolic-flux models using flux-balance analysis. Scientific visualization, web publishing, and querying of organism-specific databases. Analysis of omics datasets. Computational prediction of metabolic pathways, metabolic pathway hole fillers, and operons. Comparative analyses. |
The following publications are selected by the author. They are listed in reverse chronological order.
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Mario Latendresse. Simple and Efficient Compilation of List Comprehension in Common Lisp, in Proceedings of the International Lisp Conference, pp. 125-130, Apr 2007. [PDF, Details]
Caspi R, Foerster H, Fulcher C. A, Kaipa P, Krummenacker M, Latendresse M, Paley S, Rhee S. Y, Shearer A. G, Tissier C, Walk T. C, Zhang P, Karp P. D. The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases. Nucleic Acids Research, vol. 36, pp. D623-D631, 2007. [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]
Mario Latendresse and Marc Feeley. Generation of fast interpreters for Huffman compressed bytecode. Science of Computer Programming, vol. 57, no. 3, pp. 295-317, Sep 2005. [Details]
Mario Latendresse. Rewrite Systems for Symbolic Evaluation of C-like Preprocessing, in Proceedings of CSMR'04, pp. 165-173, Mar 2004. [PDF, Details]
Mario Latendresse. Fast Symbolic Evaluation of C/C++ Preprocessing Using Conditional Values, in Proc. of the 7th European Conference on Software Maintenance and Reengineering (CSMR), pp. 170-179, Mar 2003. [PDF, Details]
Mario Latendresse. A persistent web application for distribution of weather information in Scheme, in International Lisp Conference, Oct 2002. [PDF, Details]
