Author: Suzanne Paley

We present an architecture for scalable frame representation systems (FRSs). KBs must be supported for rapid construction by a collaborative effort of teams of knowledge engineers through reuse of existing knowledge and software components.

We describe pathway-based analyses of the genomes of a number of medically relevant microorganisms, and a novel software tool that provides visualization of gene expression data on a diagram showing the whole metabolic network of the microorganism.

The encyclopedia of Escherichia coli genes and metabolism (EcoCyc) is a database that combines information about the genome and the intermediary metabolism of E.coli .

Collaborative knowledge base (KB) authoring environments are critical for the construction of high-performance KBs. In this paper, we present an environment that satisfies many of these goals.

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).

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.

The Encyclopedia of Genes and Metabolism (EcoCyc) is a database that combines information about the genome and the intermediary metabolism of Escherichia coli.

We present a methodology for predicting the metabolic pathways of an organism from its genomic sequence.

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.

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.