Proceedings of the LITP spring school on theoretical computer science on Electronic dictionaries and automata in computational linguistics
Extended finite state models of language
Extended finite state models of language
Finite state transducers: parsing free and frozen sentences
Extended finite state models of language
Finite-State Language Processing
Finite-State Language Processing
Speech and Language Processing: An Introduction to Natural Language Processing, Computational Linguistics, and Speech Recognition
Maximum Entropy Markov Models for Information Extraction and Segmentation
ICML '00 Proceedings of the Seventeenth International Conference on Machine Learning
Information Extraction with HMM Structures Learned by Stochastic Optimization
Proceedings of the Seventeenth National Conference on Artificial Intelligence and Twelfth Conference on Innovative Applications of Artificial Intelligence
Finite-state transducer cascades to extract named entities in texts
Theoretical Computer Science - Implementation and application automata
2D Conditional Random Fields for Web information extraction
ICML '05 Proceedings of the 22nd international conference on Machine learning
Information extraction from research papers using conditional random fields
Information Processing and Management: an International Journal
An integrative approach for biological data mining and visualisation
International Journal of Data Mining and Bioinformatics
An on demand data integration model for biological databases
International Journal of Data Mining and Bioinformatics
Discovering implicit associations among critical biological entities
International Journal of Data Mining and Bioinformatics
Efficient Parsing Using Filtered-Popping Recursive Transition Networks
CIAA '09 Proceedings of the 14th International Conference on Implementation and Application of Automata
Representing sentence structure in hidden Markov models for information extraction
IJCAI'01 Proceedings of the 17th international joint conference on Artificial intelligence - Volume 2
International Journal of Data Mining and Bioinformatics
Inference of finite-state transducers from regular languages
Pattern Recognition
Discovering breast cancer drug candidates from biomedical literature
International Journal of Data Mining and Bioinformatics
A Novel Knowledge-Driven Systems Biology Approach for Phenotype Prediction upon Genetic Intervention
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Information extraction from semi-structured resources: a two-phase finite state transducers approach
CIAA'11 Proceedings of the 16th international conference on Implementation and application of automata
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To associate phenotypic characteristics of an organism to molecules encoded by its genome, there is a need for well-structured genotype and phenotype data. We use a novel method for extracting data on phenotype and genotype characteristics of microorganisms from text. As a resource, we use an encyclopedia of microorganisms, which holds phenotypic and genotypic data and create a structured, flexible data resource, which can be exported to a range of database formats, containing genotype and phenotype data for 2412 species and 873 genera of microbes. This data source has great potential as a resource for future biological research on genotype-phenotype associations. In this paper, we focus on describing the structure and content of the resulting database and on evaluating the method used for extracting the data. We conclude that the resulting database can be used as a reliable complementary resource for research into genotype-phenotype association.