Publications of Francisco M Couto

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Luis Filipe Lopes, Fabrício A.B. Silva, Francisco Couto, João Zamite, Hugo Ferreira, Carla Sousa, Mário J. Silva, Epidemic Marketplace: An Information Management System for Epidemiological Data..Proceedings of the ITBAM - DEXA 2010 2010.

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João Zamite, Fabrício A.B. Silva, Francisco Couto, Mário J. Silva, MEDCollector: Multisource Epidemic Data Collector.Proceedings of ITBAM'10 - 1st International Conference on Information Technology in Bio- and Medical Informatics - DEXA 2010 August, 2010.

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Patricia Gomes-Alves, Francisco Couto, Catia Pesquita, AV Coelho, Deborah Penque 2010: Rescue of F508del-CFTR by RXR motif inactivation triggers proteome modulation associated with the unfolded protein response. Biochimica et Biophysica Acta (BBA)-Proteins % Proteomics 4(1804), 856-865.

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Daniel Faria, Catia Pesquita, Francisco Couto, Andre O Falcao, GOclasses: molecular function as viewed by proteins.BioOntologies SIG at ISMB/ECCB - 17th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) July, 2009.

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Tiago Grego, João D. Ferreira, Catia Pesquita, Hugo Bastos, Diogo Vila Viçosa, João Freire, Francisco Couto, Chemical and Metabolic Pathway Semantic Similarity Technical Report. TR 2010-01. University of Lisbon, Faculty of Sciences, LASIGE, March 2010.

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David Batista, Mário J. Silva, Francisco Couto, Bibek Behera, Geographic Signatures for Semantic Retrieval.6th Workshop on Geographic Information Retrieval Zurich, Switzerland, 18-19 February, 2010.

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Mário J. Silva, Fabrício A.B. Silva, Luís Filipe Lopes, Francisco Couto, Building a Digital Library for Epidemic Modelling.Proceedings of ICDL 2010 - The International Conference on Digital Libraries 1, p. 447--459, New Delhi, India, 23--27 February, 2010. TERI Press -- New Delhi, India. Invited Paper.

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P.M. Coutinho, C. Rancurel, M. Stam, T. Bernard, Francisco Couto, E.G.J. Danchin, B. Henrissat: Carbohydrate-Active Enzymes Database: Principles and Classification of Glycosyltransferases. in: Bioinformatics for Glycobiology and Glycomics. Wiley. 2009.

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Catia Pesquita, Francisco Couto, Taking GO where we need it to go: focused automated enrichment of the Gene Ontology.Student Council Symposium at ISMB/ECCB 2009. Stockholm, Sweden 2009.

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Catia Pesquita, Delphine Pessoa, Daniel Faria, Francisco Couto, Collaborative Evaluation of GO-based Similarity Measures.The 12th Annual Bio-Ontologies Meeting at ISMB/ECCB 2009 2009.

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Catia Pesquita, Delphine Pessoa, Daniel Faria, Francisco Couto, CESSM : Collaborative Evaluation of Semantic Similarity Measures.JB2009: Challenges in Bioinformatics November, 2009.

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Hugo Bastos, Tiago Grego, Francisco Couto, Pedro M. Coutinho, Enzyme family coherence assessment: validation and prediction.JB'2009 - Challenges in Bioinformatics p. 26-30, Lisbon, Portugal, November, 2009.

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Ana L. Teixeira, Rui C Santos, Francisco Couto, ThermInfo: Collecting and Presenting Thermochemical Properties.INForum 2009.

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Luis Filipe Lopes, João Zamite, Bruno Tavares, Francisco Couto, Fabrício A.B. Silva, Mário J. Silva, Automated Social Network Epidemic Data Collector.INForum - Simpósio de Informática September, 2009.

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Catia Machado, Hugo Bastos, Francisco Couto, GREAT: Gene Regulation EvAluation Tool.Proceedings of the 3rd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB'09) p. 930-933, 2009. Lecture Notes in Computer Science, Springer Berlin / Heidelberg.

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Catia Pesquita, Daniel Faria, Andre O Falcao, Philip Lord, Francisco Couto 2009: Semantic Similarity in Biomedical Ontologies. PLoS Computational Biology.

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Tiago Grego, Piotr Pezik, Francisco Couto, Dietrich Rebholz-Schuhmann 2009: Identification of Chemical Entities in Patent Documents. Lecture Notes in Computer Science (5518), 942-949.

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Francisco Couto, Catia Pesquita, Tiago Grego, Paulo Verissimo 2009: Handling self-citations using Google Scholar. Cybermetrics: International Journal of Scientometrics, Informetrics and Bibliometrics.

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Catia Pesquita, Tiago Grego, Francisco Couto 2009: Identifying Gene Ontology Areas for Automated Enrichment. Lecture Notes in Computer Science (5518), 934-941.

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Catia Pesquita, Daniel Faria, Rui Lopes, Francisco Couto, Measuring coherence between electronic and manual annotations in biological databases.SAC '09: Proceedings of the 2009 ACM Symposium on Applied Computing 2009. ACM.

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Catia Pesquita, Francisco Couto, Mario Silva, Automated Enrichment of BioOntologies.First Portuguese Forum on Computational Biology (as a poster) IGC, 2008.

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Hugo Bastos, Catia Machado, Ana T. Freitas, Francisco Couto, Retrieving Relevant Documents from BioLiterature for the Curation of Yeast Gene Regulatory Networks.First Portuguese Forum on Computational Biology (as a poster) IGC, 2008.

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Francisco Couto, Mário Silva, Vivian Lee, Emily Dimmer, Evelyn Camon, Rolf Apweiler, Harald Kirsch, Dietrich Rebholz-Schuhmann: Verification of Uncurated Protein Annotations. in: Information Retrieval in Biomedicine: Natural Language Processing for Knowledge Integration. Idea Group Inc. 2008.

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Francisco Couto, Tiago Grego, Catia Pesquita, Hugo Bastos, R. Torres, P. Sanchez, L. Pascual, C. Blaschke, Identifying Bioentity Recognition Errors of Rule-Based Text-Mining Systems.IEEE Third International Conference on Digital Information Management (ICDIM) 2008.

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Catia Pesquita, Daniel Faria, Hugo Bastos, António Ferreira, Andre O Falcao, Francisco Couto 2008: Metrics for GO based protein semantic similarity: a systematic evaluation. BMC Bioinformatics Suppl 5(9), S4.

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Catia Pesquita, Daniel Faria, Tiago Grego, Francisco Couto, Mário J. Silva: Untangling BioOntologies for Mining Biomedical Information. in: Handbook of Research on Text and Web Mining Technologies. Idea Group Inc. 2008.

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P. Gomes-Alves, A.V. Coelho, Francisco Couto, P. Nogueira, D. Penque, Proteins potentially involved in F508del-CFTR trafficking restoration process.HUPO 7th Annual World Congress (poster) Amsterdam, 2008.

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Francisco Couto, Tiago Grego, Rafael Torres, Pablo Sanchez, Leandro Pascual, Christian Blaschke, Filtering Bioentity Recognition Errors in Bioliterature using a Case-based Approach.BioLINK SIG at 15th International Conference on Intelligent Systems for Molecular Biology / 6th European Conference on Computational Biology (ISMB/ECCB) July, 2007.

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Catia Pesquita, Daniel Faria, Hugo Bastos, Andre O. Falcao, Francisco Couto, Evaluating GO-based Semantic Similarity Measures.BioOntologies SIG at ISMB/ECCB - 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) July, 2007.

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Daniel Faria, Catia Pesquita, Francisco Couto, Andre O. Falcao, ProteinOn: Web Tool for Protein Semantic Similarity.Poster at ISMB/ECCB 2007 July, 2007.


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