Artificial intelligence publications
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Using Functional and Organizational Information to Improve Genome-Wide Computational Prediction of Transcription Units on Pathway/Genome Databases
We implemented a TU predictor that uses only intergenic distance and functional classification of genes to predict TU boundaries, and applied it to EcoCyc, our PGDB of Escherichia coli.
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Designing a System for Structured Assessment of Compliance Risk
A formal reasoning technique known as structured argumentation has been explored by the IRS LMSB Research to improve compliance risk assessment. The IRS together with SRI International evaluated the use…
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Interactive Execution Monitoring of Agent Teams
We describe a monitoring framework for integrating many domain-specific and task-specific monitoring techniques and then using the concept of value of an alert to avoid operator overload.
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Knowledge acquisition, consistency checking and concurrency control for Gene Ontology (GO)
In this paper, we assess the applicability of a Knowledge Base Management System (KBMS), Protégé-2000, to the maintenance and development of GO.
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Adjustable Autonomy Challenges in Personal Assistant Agents: A Position Paper
The successful integration and acceptance of many multi-agent systems into daily lives crucially depends on the ability to develop effective policies for adjustable autonomy.
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The Pathway Tools software and its Role in Anti-Microbial Drug Discovery
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PseudoCyc, a Pathway/Genome Database for Pseudomonas aeruginosa
Our PathoLogic software can generate a PGDB from an annotated genome of an organism, predicting the metabolic reactions and pathways corresponding to the enzymes present in the annotation.
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Introduction to a multiagent perspective
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The MetaCyc Metabolic Pathway Database
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Using Transformations to Improve Semantic Matching
In this paper, we describe how transformations can augment existing semantic approaches to further improve matching.
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Execution Monitoring in Agent Teams
We characterize the domain-independent challenges posed by this problem, and describe how properties of domains influence the challenges and their solutions.
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HpyCyc: Helicobacter pylori Pathway/Genome Database
A Pathway/Genome Database for Helicobacter pylori is available at URL BioCyc.org. The database integrates the full genome of H. pylori with its computationally predicted metabolic pathways.