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Alumnus of the Artificial Intelligence Center
He was a Post Doctorate Fellow in the Bioinformatics Research Group in the AIC.
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EcoCyc: Encyclopedia of Escherichia coli Genes and MetabolismEcoCyc 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. |
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MetaCyc: Metabolic Pathway DatabaseThe MetaCyc metabolic pathway database contains pathways from over 150 different organisms. MetaCyc describes metabolic pathways, reactions, enzymes, and substrate compounds. The MetaCyc data were gathered from a variety of literature and on-line sources, and contain citations to the source of each pathway. |
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Pathway ToolsPathway Tools consists of two sets of tools: the Editors and Pathologic. The Editors are specialized for editing a pathway/genome database. Pathologic helps create a new pathway/genome database containing pathways predicted from an annotated genome (typically as a Genbank entry) and the MetaCyc database. |
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A System for Representing Textbook KnowledgeThe goal of the project is to demonstrate the current state-of-the-art in knowledge representation by attempting to answer the questions in an advance placement test in chemistry. |
The following are in reverse chronological order of publication.
[View All]
Barker, K. and Chaudhri, V., Chaw, Sha Yi and Clark, Peter E. and Fan, James and Israel, David and Mishra, Sunil and Porter, Bruce and Romero, Pedro and Tecuci, Dan and Yeh, Peter. A Question Answering System for AP Chemistry: Assessing KR Technologies, in Proceedings of the 9th International Conference on Knowledge Representation and Reasoning, June 2-4 2004. [PDF, Details]
Barker, K. and Chaudhri V. and Clark, P. and Israel, D. and Porter, B. and Romero, P. Halo Pilot Project, Technical Report . SRI International, May 2003. [Details]
Karp, P.D. and Paley, S. and Romero, P. The Pathway Tools Software. Bioinformatics, vol. 18, pp. S225-S232, 2002. [Details]
Romero, P. and Karp, P.D. Nutrient-related Analysis of Pathway/Genome Databases, in Proceedings of the Pacific Symposium on Biocomputing, World Scientific, Singapore, pp. 471-482, 2001. [PDF, Details]
