Artificial intelligence publications
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An Annotated Corpus and Method for Analysis of Ad-Hoc Structures Embedded in Text
We describe a method for identifying and performing functional analysis of structured regions that are embedded in natural language documents, such as tables or key-value lists.
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Can we replace curation with information extraction software?
Can we use programs for automated or semi-automated information extraction from scientific texts as practical alternatives to professional curation? I show that error rates of current information extraction programs are…
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Pathway collages: personalized multi-pathway diagrams
We define software for constructing personalized multi-pathway diagrams called pathway-collages using a combination of manual and automatic layouts.
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How Much Does Curation Cost?
Here we calculate the cost of biocuration of articles for the EcoCyc database as $219 per article over a 5-year period.
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Crowd-sourcing and author submission as alternatives to professional curation
This perspective considers the significant experience accumulated by the bioinformatics community with these two alternatives to professional curation in the last 20 years…
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How the strengths of Lisp-family languages facilitate building complex and flexible bioinformatics applications
We present a rationale for expanding the presence of the Lisp family of programming languages in bioinformatics and computational biology research.
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Computational Metabolomics Operations at Biocyc.Org
BioCyc.org is a genome and metabolic pathway web portal covering 5500 organisms, including Homo sapiens, Arabidopsis thaliana, Saccharomyces cerevisiae and Escherichia coli.
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Neural network joint modeling via context-dependent projection
We propose a context-dependent linear projection approach which considers neighboring words. Experimental results showed that the proposed approach further improves NNJM by 0.5 BLEU for English-Iraqi Arabic translation in N-best…
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Natural Language Access to Data: It Takes Common Sense!
In a deductive approach to this problem, language processing technology translates English queries into a first-order logical form, which is regarded as a conjecture to be established by a theorem…
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Pathway Tools version 19.0 update: Software for Pathway/Genome Informatics and Systems Biology
The software provides genome-informatics tools such as a genome browser, sequence alignments, a genome-variant analyzer and comparative-genomics operations.
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Optimal Metabolic Route Search Based on Atom Mappings
We present the algorithm used in the new RouteSearch tool within the Pathway Tools software.
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An Operational Semantics for the Goal Life-Cycle in BDI Agents
A fundamental feature of intelligent agents is their ability to deliberate over their goals. Operating in an environment that may change in unpredictable ways, an agent needs to regularly evaluate…