Artificial intelligence publications
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Identifying Candidate Genes Using The BioWarehouse: A Case Study
The BioWarehouse is an open source data warehousing environment focused on supporting bioinformatics databases (DBs). BioWarehouse integrates public source DBs such as Swiss-Prot and GenBank into a unified normalized schema…
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EcoCyc: a comprehensive database resource for Escherichia coli
The mission for EcoCyc is to contain both computable descriptions of, and detailed comments describing, all genes, proteins, pathways and molecular interactions in E.coli.
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Database Editing Metrics for Pattern Matching
This paper introduces a family of metrics to measure the degree of qualitative match between a database and a pattern, that is, an elastic constraint on database objects and their…
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The SPARK Agent Framework
We describe the SRI Procedural Agent Realization Kit (SPARK), a new BDI agent framework that combines scaleability and the clean semantic underpinning of more formal agent frameworks.
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MetaCyc: a multiorganism database of metabolic pathways and enzymes
In the past 2 years the data content and the Pathway Tools software used to query, visualize and edit MetaCyc have been expanded significantly. These enhancements are described in this…
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Toward full automation of lexicon construction
We describe a technique of this nature called information theoretic co clustering and give results of a series of experiments built around it that demonstrate the main ingredients of lexical…
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Prioritizing Planning Decisions in Real-World Plan Authoring
This paper describes two methods for automatically prioritizing planning decisions. Both approaches have been implemented in PASSAT, a plan-authoring system in which users construct and modify plans interactively using a…
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Toward Unsupervised Whole-Corpus Tagging
We present a system for unsupervised tagging of words into classes produced by a distributional clustering technique called co-clustering.
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A Bayesian method for identifying missing enzymes in predicted metabolic pathway databases
We have developed a method that efficiently combines homology and pathway-based evidence to identify candidates for filling pathway holes in Pathway/Genome databases.
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Towards a Quantitative Platform Independent Analysis of Knowledge Systems
The Halo Pilot collaboratively developed a taxonomy of failures with the goal of creating a common framework of metrics against which we could measure inter- and intra- system failure characteristics…
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An Evidence Ontology for use in Pathway/Genome Databases
This paper presents an ontology for encoding the type of support and the degree of support for DB assertions, and for encoding the literature source in which that support is…
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A Multimodal Learning Interface for Sketch, Speak and Point Creation of a Schedule Chart
We present a video demonstration of an agent-based test bed application for ongoing research into multi-user, multimodal, computer-assisted meetings.