IJCAR '01 Proceedings of the First International Joint Conference on Automated Reasoning
A shallow parser based on closed-class words to capture relations in biomedical text
Journal of Biomedical Informatics
Evolving GATE to meet new challenges in language engineering
Natural Language Engineering
Journal of the American Society for Information Science and Technology - Bioinformatics
Mutation Mining--A Prospector's Tale
Information Systems Frontiers
Text Mining for Biology And Biomedicine
Text Mining for Biology And Biomedicine
Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences
Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences
Semantic web infrastructure for fungal enzyme biotechnologists
Web Semantics: Science, Services and Agents on the World Wide Web
Using Selectional Restrictions to Query an OWL Ontology
Proceedings of the 2006 conference on Formal Ontology in Information Systems: Proceedings of the Fourth International Conference (FOIS 2006)
Semi-supervised anaphora resolution in biomedical texts
BioNLP '06 Proceedings of the Workshop on Linking Natural Language Processing and Biology: Towards Deeper Biological Literature Analysis
Swoop: A Web Ontology Editing Browser
Web Semantics: Science, Services and Agents on the World Wide Web
The fungalweb ontology: semantic web challenges in bioinformatics and genomics
ISWC'05 Proceedings of the 4th international conference on The Semantic Web
Combining biological databases and text mining to support new bioinformatics applications
NLDB'05 Proceedings of the 10th international conference on Natural Language Processing and Information Systems
AquaLog: an ontology-portable question answering system for the semantic web
ESWC'05 Proceedings of the Second European conference on The Semantic Web: research and Applications
Attempt to design a bio-medical knowledge discovery system
International Journal of Bio-Inspired Computation
Algorithm for grounding mutation mentions from text to protein sequences
DILS'10 Proceedings of the 7th international conference on Data integration in the life sciences
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The biomedical literature is growing at an ever-increasing rate, which pronounces the need to support scientists with advanced, automated means of accessing knowledge. We investigate a novel approach employing description logics (DL)-based queries made to formal ontologies that have been created using the results of text mining full-text research papers. In this paradigm, an OWL-DL ontology becomes populated with instances detected through natural language processing (NLP). The generated ontology can be queried by biologists using DL reasoners or integrated into bioinformatics workflows for further automated analyses. We demonstrate the feasibility of this approach with a system targeting the protein mutation literature.