Author: Peter Karp
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Use of Metabolic Databases to Guide Target Selection for Anti-Microbial Drug Design
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EcoCyc: Electronic Encyclopedia of E. coli Genes and Metabolism
The Encyclopedia of E. coli Genes and Metabolism (EcoCyc) is a database that combines information about the genome and the intermediary metabolism of E. coli.
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EcoCyc: Enyclopedia of Escherichia coli Genes and Metabolism
The Encyclopedia of Genes and Metabolism (EcoCyc) is a database that combines information about the genome and the intermediary metabolism of Escherichia coli.
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A Generic Knowledge-Base Browser and Editor
The GKB Editor is a generic editor and browser of knowledge bases (KBs) and ontologies – generic in the sense that it is portable across several frame knowledge representation systems (FRSs).
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Database Links are a Foundation for Interoperability
This article provides an overview of the DB-interoperation problem, and offers several solutions. It discusses how links are used in molecular biology DBs, and describes the potential stumbling blocks when DB links are created and used.
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Integrated Access to Metabolic and Genomic Data
We describe the design and implementation of visual presentations that closely mimic those found in the biology literature, and employ a frame knowledge representation system (FRS) called HyperTHEO to manage the EcoCyc knowledge base.
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EcoCyc: Electronic Encyclopedia of E. coli Genes and Metabolism
The EcoCyc graphical user interface allows scientists to query and explore the EcoCyc database using visualization tools such as genomic-map browsers and automatic layouts of metabolic pathways.
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A Protocol for Maintaining Multidatabase Referential Integrity
We propose a network protocol whereby a database administrator can provide information about changes to the identifiers of objects in their database via Internet, to allow other databases to maintain referential integrity.
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HinCyc: A Knowledge Base of the Complete Genome and Metabolic Pathways of H. influenzae
We present a methodology for predicting the metabolic pathways of an organism from its genomic sequence.
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Adapting EcoCyc for Use on the World Wide Web
We have developed a Web server tool, written in Common Lisp, that allows existing graphical user interface applications written using the Common Lisp Interface Manager (CLIM) to hook easily into the WWW.
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Knowledge Representation in the Large
We describe the design and implementation of a storage subsystem that submerges a database management system (DBMS) within a knowledge representation system.
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A vision of database interoperation