Artificial intelligence publications
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The EcoCyc Database
The long-term goal of the project is to describe the complete molecular catalog of the E. coli cell, as well as the functions of each of its molecular parts, to…
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The MetaCyc database of pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
The MetaCyc database (MetaCyc.org) is a comprehensive and freely accessible database describing metabolic pathways and enzymes from all domains of life.
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Evaluating Multimedia Features and Fusion for Example-Based Event Detection
To study the value of multimedia features and fusion for representing and learning events from a set of example video clips, we created SESAME, a system for video SEarch with…
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Unsupervised Discovery and Extraction of Semi-Structured Regions in Text Via Self-Information
We present initial work that uses significant patterns to generate extraction rules, and conclude with a discussion of future directions of our work.
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Metabolic Reconstruction Databases and Their Application to Metabolomics Research
This chapter describes the MetaCyc family of Pathway/Genome Databases (PGDBs).
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Dead End Metabolites – Defining the Known Unknowns of the E. coli Metabolic Network
We have analysed the occurrence of dead end metabolites within the database – these are metabolites which lack the requisite reactions (either metabolic or transport) that would account for their…
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Discovering Action Idioms: Bridging the Gap between System-Level Events and Human-Level Actions
We present a sequential pattern mining approach to discovering human-level actions-action idioms - from instrumentation logs of lower-level events.
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The COMBREX Project: Design, Methodology, and Initial Results
COMBREX is an NIH-funded enterprise that has brought computational and experimental biologists together, with the goal of greatly improving our overall understanding of microbial protein function.
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Drill Evaluation for Training Procedural Skills
This paper describes an automated assessment and feedback capability that has been applied to training for a complex software system in widespread use throughout the U.S. Army.
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Groups: Knowledge Spreadsheets for Symbolic Biocomputing
‘Groups’ is an implementation of Knowledge Spreadsheets (KSs) within the Pathway Tools system.
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The Challenge of Constructing, Classifying, and Representing Metabolic Pathways
This review describes the criteria that need to be considered, and the rules that have been developed by MetaCyc curators as they make decisions regarding the representation and classification of…
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Extracting Spoken and Acoustic Concepts for Multimedia Event Detection
In this paper, we explore using acoustic concepts and spoken concepts extracted via audio segmentation/recognition and speech recognition respectively for Multimedia Event Detection (MED).