Books

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  • J. L. Oliveira, V. Maojo, F. Martin-Sanchez, and A. S. Pereira, Biological and Medical Data Analysis, Springer, 2005.
  • N. P. Rocha, F. Ramos, and J. L. Oliveira, Introdução à Informática, Universidade de Aveiro, 1997.
 

Book
Chapters

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  • A. Freitas, W. Ayadi, M. Elloumi, J. L. Oliveira, and J.-K. Hao, "A Survey on Biclustering of Gene Expression Data", Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data. vol. to appear, M. E. a. A. Y. Zomaya, Ed.,Wiley, 2013.
  • D. Campos, S. Matos, and J. L. Oliveira, "Current methodologies for biomedical Named Entity Recognition", Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data. vol. to appear, M. E. a. A. Y. Zomaya, Ed.,Wiley, 2013.
  • D. Campos, S. Matos, and J. L. Oliveira, "Biomedical Named Entity Recognition: a Survey of Machine-Learning Tools", Theory and Applications for Advanced Text Mining, S. Sakurai, Ed.,InTech, 2012.
  • P. Lopes and J. L. Oliveira, "Collecting and Enriching Human Variome Datasets", Tecnologías NBIC en Salud: El papel protagonista de la Nanociencia, A. F. Jordi Aguiló, Diana de la Iglesia, Victoria López, Alejandro Pazos, Ed. La Coruna,CYTED, 2012, pp. 9-19.
  • J. Arrais, S. Matos, and J. L. Oliveira, "Integração de Dados Biomédicos", Nano, Bio, Info y Cogno (Convergencia de Tecnologías NBIC) Conceptos y Aplicaciones, A. F. J Aguiló, A Freire, D Iglesia, F Martin, A Pazos, Ed. La Coruna,CYTED, 2011, pp. 185-226.
  • L. Ribeiro, C. Costa, and J. L. Oliveira, "Current Trends in Archiving and Transmission of Medical Images", Medical Imaging, O. F. Erondu, Ed.,InTech, 2011, pp. 297-298.
  • J. Arrais, S. Matos, and J. L. Oliveira, "Expansão de termos de pesquisa usando redes de conceitos associadas a genes", Nuevas Fronteras Tecnológicas,CYTED, 2010, pp. 90-107.
  • D. Santos, C. Costa, J. L. Oliveira, and A. Neves, "Alternative lossless compression algorithms in X-ray cardiac images", Computational Vision and Medical Image Processing, N. J. João Tavares, Ed. London,Taylor & Francis Group, 2008, pp. 143-146.
  • G. Moura, M. Pinheiro, A. Freitas, J. L. Oliveira, and M. A. Santos, "Computational and Statistical Methodologies for ORFeome Primary Structure Analysis", Comparative Genomics, N. Bergman, Ed.,Humana Press, USA., 2007, pp. 449-62.
  • C. Costa, A. Silva, and J. L. Oliveira, "Current Perspectives on PACS and a Cardiology Case Study", Advanced Computational Intelligence Paradigms in Healthcare 2. vol. 65, S. Vaidya, L. C. Jain, and H. Yoshida, Eds.,Springer-Verlag, 2007, pp. 79-108.
  • C. Costa, A. Silva, J. L. Oliveira, V. Ribeiro, and J. Ribeiro, "A demanding Web-based PACS supported by Web Services technology", Medical Imaging 2006: PACS and Imaging Informatics. vol. 6145, O. R. Steven C.Horii, Ed., 2006.
  • C. Costa, J. L. Oliveira, A. Silva, V. Ribeiro, and J. Ribeiro, "Himage: Um Web-PACS inovador para Imagem Cardíaca", TIC em Biomedicina. vol. 6145, M. G. J. R. Rabunal, N. Pedreira, J. Pereira, Ed. Santiago de Compostela 2005.
  • C. Costa, A. Silva, J. L. Oliveira, V. Ribeiro, and J. Ribeiro, "Himage PACS: A new approach to storage, integration and distribution of cardiologic images", Progress in Biomedical Optics and Imaging. vol. 5, H. H. Ratib OM, Ed., 2004, pp. 277-287.
  • J. L. Oliveira and R. Aguiar, "QoS Negotiation Based on Management Delegates", Enterprise Information Systems III, J. Filipe, B. Sharp, and P. Miranda, Eds.,Kluwer, 2002, pp. 295-303.
  • J. Mota, J. L. Oliveira, and F. Ramos, "A Remote Meteorological Data Service Supported on Corba", Enterprise Information Systems, J. Filipe, Ed.,Kluwer Academic Publishers, 2000.
  • R. Aguiar and J. L. Oliveira, "New Services on an Advanced Internet", Multimedia Applications, Services and Techniques - ECMAST'99, H. Leopold and N. García, Eds.,Springer, 1999, pp. 197-211.
 

International
Journals

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  • M. Cases, L. I. Furlong, J. Albanell, R. B. Altman, R. Bellazzi, S. Boyer, A. Brand, A. J. Brookes, S. Brunak, T. W. Clark, J. Gea, P. Ghazal, N. Graf, R. Guigó, T. E. Klein, N. López-Bigas, V. Maojo, B. Mons, M. Musen, J. L. Oliveira, A. Rowe, P. Ruch, A. S. (Shvo), E. H. Shortliffe, A. Valencia, J. v. d. Lei, M. A. Mayer, and F. Sanz, "How to improve data and knowledge management to better integrate healthcare and research", Journal of Internal Medicine, 2013 (accepted).
  • L. Bastião, C. Costa, and J. L. Oliveira, "A common API for delivering services over multi-vendor cloud resources", Journal of Systems and Software, 2013 (accepted).
  • E. Coelho, J. Arrais, and J. L. Oliveira, "From Protein-Protein Interactions to Rational Drug Design: Are Computational Methods Up to the Challenge?", Current Topics in Medicinal Chemistry, vol. 13, pp. 602-618, Mar 2013.
  • D. Campos, S. Matos, and J. L. Oliveira, "Gimli: open source and high-performance biomedical name recognition", BMC Bioinformatics, vol. 15, Feb 2013.
  • J. Arrais, N. Rosa, J. Melo, E. Coelho, D. Amaral, M. J. Correia, M. Barros, and J. L. Oliveira, "OralCard: a bioinformatic tool for the study of Oral Proteome", Archives of Oral Biology, Feb 2013.
  • P. Gaspar, G. Moura, M. A. S. Santos, and J. L. Oliveira, "mRNA secondary structure optimization using a correlated stem-loop prediction", Nucleic Acids Research, pp. 1-5, Jan 2013.
  • P. Lopes and J. L. Oliveira, "COEUS: "semantic web in a box" for biomedical applications", Journal of Biomedical Semantics , vol. 3, Dec 2012.
  • J. L. Oliveira, P. Lopes, T. Nunes, D. Campos, S. Boyer, E. Ahlberg, E. van Mullingen, J. Kors, B. Singh, L. I. Furlong, F. Sanz, A. Bauer-Mehren, M. D. C. Carrascosa, J. Mestres, P. Avillach, C. Díaz Acedo, and J. van der Lei, "The EU-ADR Web Platform: delivering advanced pharmacovigilance tools", Pharmacoepidemiology and Drug Safety, vol. [Epub ahead of print], Dec 2012.
  • P. Gaspar, J. L. Oliveira, J. Frommlet, M. A. S. Santos, and G. Moura, "EuGene: Maximizing synthetic gene design for heterologous expression", Bioinformatics, vol. 28, pp. 2683-4, Oct 2012.
  • J. P. Lousado, J. L. Oliveira, G. Moura, and M. A. S. Santos, "An integrative approach for codon repeats evolutionary analyses", Int. J. of Data Mining and Bioinformatics, vol. 6, pp. 369-381, Sep 2012.
  • C. Costa and J. L. Oliveira, "Telecardiology through ubiquitous Internet services", International Journal of Medical Informatics, vol. 81, pp. 612-21, Sep 2012.
  • L. Bastião, C. Costa, and J. L. Oliveira, "DICOM Relay over the Cloud", International Journal of Computer Assisted Radiology and Surgery, vol. (online first), Aug 2012.
  • P. Gaspar and J. L. Oliveira, "Advantages of a Pareto-based genetic algorithm to solve the gene synthetic design problem", Current Bioinformatics, vol. 7, pp. 304-9, July 2012.
  • P. Gaspar, J. Carbonell, and J. L. Oliveira, "On the parameter optimization of Support Vector Machines for binary classification", Journal of Integrative Bioinformatics, vol. 9, July 2012.
  • L. Ribeiro, C. Costa, and J. L. Oliveira, "Clustering of distinct PACS archives using a cooperative peer-to-peer network", Computer Methods and Programs in Biomedicine, vol. 108, Dec 2012.
  • F. Valente, C. Viana-Ferreira, C. Costa, and J. L. Oliveira, "A RESTful Image Gateway for Multiple Medical Image Repositories", IEEE Transactions on Information Technology in Biomedicine, vol. 16, pp. 356-364, June 2012.
  • L. Bastião, C. Costa, and J. L. Oliveira, "A PACS archive architecture supported on Cloud services", International Journal of Computer Assisted Radiology and Surgery, vol. 7, pp. 349-358, May 2012.
  • D. Campos, S. Matos, I. Lewin, J. L. Oliveira, and D. Rebholz-Schuhmann, "Harmonisation of gene/protein annotations: towards a gold standard MEDLINE", Bioinformatics, vol. 28, pp. 1253-61, May 2012.
  • A. Bauer-Mehren, E. van Mullingen, P. Avillach, M. D. C. Carrascosa, R. García-Serna, J. Pinero, B. Singh, P. Lopes, J. L. Oliveira, G. Diallo, A. E. Helgee, B. Scott, J. Mestres, F. Sanz, J. Kors, and L. I. Furlong, "Automatic filtering and substantiation of drug safety signals", PLoS Computational Biology, vol. 8, April 2012.
  • P. Gonçalves, J. L. Oliveira, and R. Aguiar, "A study of encoding overhead in network management protocols", International Journal of Network Management, vol. 22, pp. 435-450, Nov 2012.
  • N. Rosa, M. J. Correia, J. Arrais, P. Lopes, J. Melo, J. L. Oliveira, and M. Barros, "From the salivary proteome to the OralOme: Comprehensive molecular oral biology", Archives of Oral Biology, Jan 2012.
  • L. Bastião, C. Costa, and J. L. Oliveira, "Strengths and Weaknesses of Using Cloud Computing", Imaging Management, vol. 11, 2012.
  • G. R. Moura, M. Pinheiro, A. Freitas, J. L. Oliveira, J. C. Frommlet, L. Carreto, A. R. Soares, A. R. Bezerra, and M. A. S. Santos, "Species-Specific Codon Context Rules Unveil Non-Neutrality Effects of Synonymous Mutations", PLoS ONE, vol. 6, Oct 2011.
  • C. Costa, C. Ferreira, L. Bastiao, L. Ribeiro, A. Silva, and J. L. Oliveira, "Dicoogle - an Open Source Peer-to-Peer PACS", Journal of Digital Imaging, vol. 24, pp. 848-856, Oct 2011.
  • J. Arrais and J. L. Oliveira, "Using biomedical networks to prioritize gene–disease associations", Open Access Bioinformatics, vol. 3, p. 8, 2011.
  • M. Brochhausen, A. Burgun, W. Ceusters, A. Hasman, T. Y. Leong, M. Musen, J. L. Oliveira, M. Peleg, A. Rector, and S. Schulz, "Discussion of "Biomedical Ontologies: Toward Scientific Debate"", Methods of Information in Medicine, vol. 50, pp. 217-236, 2011.
  • A. Freitas, V. Afreixo, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Improving the Performance of the Iterative Signature Algorithm for the Identification of Relevant Patterns", Statistical Analysis and Data Mining, vol. 4, pp. 71-83, 2011.
  • P. Lopes, R. Dalgleish, and J. L. Oliveira, "WAVe: Web Analysis of the Variome", Human Mutation, vol. 32, pp. 729-734, Jul 2011.
  • S. Matos and J. L. Oliveira, "Classification methods for finding articles describing protein-protein interactions in PubMed", Journal of Integrative Bioinformatics, vol. 8, p. 178, 2011.
  • C. Costa, L. Bastião, C. Ferreira, S. Campos, A. Silva, and J. L. Oliveira, "Dicoogle - a paradigm change in medical imaging networks", Diagnostic Imaging Europe, pp. 22-23, November 2011.
  • J. Arrais, J. Fernandes, J. Pereira, and J. L. Oliveira, "GeneBrowser 2: an application to explore and identify common biological traits in a set of genes", BMC Bioinformatics, vol. 11, 2010.
  • S. Matos, J. Arrais, J. Maia-Rodrigues, and J. L. Oliveira, "Concept-based query expansion for retrieving gene related publications from MEDLINE", BMC Bioinformatics, vol. 11, 2010.
  • C. Costa, J. L. Oliveira, A. Silva, V. Ribeiro, and J. Ribeiro, "Design, development, exploitation and assessment of a Cardiology Web PACS ", Computer Methods and Programs in Biomedicine, vol. 93, pp. 273-282, 2009.
  • C. Costa, F. Freitas, M. Pereira, A. Silva, and J. L. Oliveira, "Indexing and retrieving DICOM data in disperse and unstructured archives ", International Journal of Computer Assisted Radiology and Surgery, vol. 4, pp. 71-77, 2009.
  • A. R. Soares, P. M. Pereira, B. Santos, C. Egas, A. C. Gomes, J. Arrais, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Parallel DNA pyrosequencing unveils new zebrafish microRNAs", BMC Genomics, vol. 10, 2009.
  • G. Moura, M. Pinheiro, J. Arrais, A. C. Gomes, L. Carreto, A. Freitas, J. L. Oliveira, and M. A. Santos, "Large Scale Comparative Codon-Pair Context Analysis Unveils General Rules that Fine-Tune Evolution of mRNA Primary Structure", PLoS ONE, vol. 2, p. e847, 2007.
  • J. Arrais, B. Santos, J. Fernandes, L. Carreto, M. A. Santos, and J. L. Oliveira, "GeneBrowser: an approach for integration and functional classification of genomic data", Journal of Integrative Bioinformatics, vol. 4, 2007.
  • G. Moura, J. P. Lousado, M. Pinheiro, L. Carreto, R. Silva, J. L. Oliveira, and M. A. Santos, "Codon-triplet context unveils unique features of the Candida albicans protein coding genome", BMC Genomics, vol. 4, 2007.
  • M. Pinheiro, V. Afreixo, G. Moura, A. Freitas, M. A. Santos, and J. L. Oliveira, "Statistical, computational and visualization methodologies to unveil gene primary structure features", Methods of Information in Medicine, vol. 45, pp. 163-168, 2006.
  • G. S. Dias, J. L. Oliveira, J. Vicente, and F. Martin-Sanchez, "Integrating medical and genomic data: a successful example for rare diseases", Stud Health Technol Inform, vol. 124, pp. 125-30, 2006.
  • G. Moura, M. Pinheiro, R. Silva, I. Miranda, V. Afreixo, G. Dias, A. Freitas, J. L. Oliveira, and M. A. Santos, "Comparative context analysis of codon pairs on an ORFeome scale", Genome Biology, vol. 6, p. R28, 2005.
  • I. Oliveira, J. L. Oliveira, J. P. Sanchez, V. López-Alonso, F. Martin-Sanchez, V. Maojo, and A. S. Pereira, "Grid requirements for the integration of biomedical information resources for health applications", Methods of Information in Medicine, vol. 44, pp. 161-67, 2005.
  • M. Pinheiro, J. L. Oliveira, M. A. S. Santos, H. Rocha, M. L. Cardoso, and L. Vilarinho, "A Computer-based Solution for Screening of Inherited Metabolic Diseases", Journal of Inherited Metabolic Disease, vol. 27, p. 4, 2004.
  • C. Costa, A. Silva, J. L. Oliveira, A. S. Pereira, and V. Ribeiro, "A Multi-service Patient Data Card", Technology and Health Care, vol. 10, pp. 462-464, 2002.
  • C. Costa, A. Silva, J. L. Oliveira, A. S. Pereira, V. Ribeiro, and A. Damasceno, "A Transcontinental Telemedicine Platform for Cardiovascular Ultrasound", Technology and Health Care, vol. 10, pp. 460-462, 2002.
  • C. Costa, A. Silva, J. L. Oliveira, and A. S. Pereira, "A New Access Mechanism to Clinic Data", Technology and Health Care, vol. 9, pp. 459-460, 2001.
  • J. L. Oliveira and J. A. Martins, "A Management Architecture based on Network Topology Information", Journal of Network and Systems Management, vol. 2, pp. 401-414, Dec. 1994.
 

National
Journals

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  • J. P. Lousado and J. L. Oliveira, "Análise de repetições em dados biológicos", Millenium , pp. 7-18, June 2010.
  • B. Teixeira, J. Arrais, and J. L. Oliveira, "Statistical application for DNA microarray data analysis", Electrónica e Telecomunicações (UA/DETI Journal), 2010.
  • M. Pinheiro, G. Dias, V. Afreixo, A. Valente, G. Moura, M. A. S. Santos, and J. L. Oliveira, "Sistema bioinformático para análise do mecanismo molecular de descodificação da informação genética", Electrónica e Telecomunicações (UA/DET Journal), vol. 4, pp. 88-96, September 2003.
  • V. Roque and J. L. Oliveira, "CORBA, DCOM e JavaRMI - Uma Análise Comparativa", Ingenium, pp. 87-91, March 2000.
  • R. Aguiar and J. L. Oliveira, "Issues on Internet Evolution and Management (selected article from ICEIS'99 - 1st International Conference on Enterprise Information Systems)", Sistemas de Informação, pp. 39-48, 1999.
  • R. P. Lopes and J. L. Oliveira, "Software Agents in Network Management (selected article from ICEIS'99 - 1st International Conference on Enterprise Information Systems)", Sistemas de Informação, pp. 59-70, 1999.
  • N. P. Rocha, L. M. Pereira, C. Susana, C. Clara, and J. L. Oliveira, "The Portuguese Experiment within the IBCoBN Project", Electrónica e Telecomunicações (UA/DET Journal), vol. 2, pp. 696-699, Sep. 1999.
  • R. Martins, S. Bernardo, and J. L. Oliveira, "Interface de Gestão Web para HP OpenView", Electrónica e Telecomunicações (UA/DET Journal), vol. 2, pp. 373-380, Jan. 1999.
  • R. P. Lopes and J. L. Oliveira, "Redes Ethernet: de 1 Mbit a 1 Gbit", Electrónica e Telecomunicações (UA/DET Journal), vol. 2, pp. 47-55, Sep. 1997.
  • N. P. Rocha and J. L. Oliveira, "O Ensino de Informática em Licenciaturas de Ciências e Tecnologia", Electrónica e Telecomunicações (UA/DET Journal), vol. 2, pp. 5-12, Sep. 1997.
  • J. L. Oliveira, "Network Management Architectures: Overview and Evaluation", Electrónica e Telecomunicações (UA/DET Journal), vol. 1, pp. 531-542, Sep. 1996.
  • R. P. Lopes, M. Esteves, J. A. Martins, and J. L. Oliveira, "Modelo de Integração de Aplicações Distribuídas e não Colaborantes", Electrónica e Telecomunicações (UA/DET Journal), vol. 1, pp. 377-386, Sep. 1995.
  • J. L. Oliveira, J. A. Martins, and J. S. Pinto, "Ethernet Traffic Measurements: A Case Study", Electrónica e Telecomunicações (UA/DET Journal), vol. 1, pp. 103-108, Sep. 1994.
  • P. Costa, M. Domingues, J. A. Martins, and J. L. Oliveira, "Monitorização e Visualização de Recursos num Ambiente Distribuído", Electrónica e Telecomunicações (UA/DET Journal), vol. 1, pp. 33-40, Jan. 1994.
  • F. Pipa, J. L. Oliveira, and J. A. Martins, "Desenvolvimento de um Agente de Monitoração para Redes TCP/IP", Electrónica e Telecomunicações (UA/DET Journal), vol. 1, pp. 5-15, Jan. 1994.
 

Conferences
(full papers)

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  • J. C. Santos, T. Pedrosa, C. Costa, and J. L. Oliveira, " Concepts for a Personal Health Record", in 24th European Medical Informatics Conference (MIE2012), Pisa, Italy, 2012.
  • C. Viana-Ferreira, D. Ferreira, F. Valente, E. Monteiro, C. Costa, and J. L. Oliveira, " Dicoogle Mobile: a medical imaging platform for Android", in 24th European Medical Informatics Conference (MIE2012), Pisa, Italy, 2012.
  • L. Ribeiro, C. Costa, and J. L. Oliveira, "Enhancing the many-to-many relations across IHE Document Sharing Communities", in 24th European Medical Informatics Conference (MIE2012), Pisa, Italy, 2012.
  • C. Viana-Ferreira, C. Costa, and J. L. Oliveira, "Dicoogle Relay – a Cloud Communications Bridge for Medical Imaging", in 25th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2012), Rome, Italy, 2012.
  • R. Mendonça, A. F. Rosa, J. L. Oliveira, and A. Teixeira, "Towards ontology based health information search in Portuguese - A case study in neurologic diseases", in 7th Iberian Conference on Information Systems and Technologies (CISTI 2012), Madrid, Spain, 2012.
  • P. Gaspar, J. Carbonell, and J. L. Oliveira, "Parameter influence in genetic algorithm optimization of support vector machines", in 7th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2012), Salamanca, Spain, 2012.
  • P. Lopes, R. Mendonça, H. Rocha, J. Oliveira, L. Vilarinho, R. Santos, and J. L. Oliveira, "A Rare Disease Patient Manager", in 7th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2012), Salamanca, Spain, 2012.
  • L. Bastião Silva, C. Costa, and J. L. Oliveira, "A DICOM relay service supported on cloud resources", in 5th International Conference on Health Informatics (HEALTHINF 2012), Vilamoura, Portugal, 2012.
  • T. Pedrosa, R. P. Lopes, J. C. Santos, C. Costa, and J. L. Oliveira, "A secury personal health record repository", in 5th International Conference on Health Informatics (HEALTHINF 2012), Vilamoura, Portugal, 2012.
  • L. Velte, T. Pedrosa, C. Costa, and J. L. Oliveira, "An OPENEHR repository based on a native XML database", in 5th International Conference on Health Informatics (HEALTHINF 2012), Vilamoura, Portugal, 2012.
  • R. Mendonça, P. Lopes, H. Rocha, J. Oliveira, L. Vilarinho, R. Santos, and J. L. Oliveira, "Gathering and managing genotype and phenotype information about rare diseases patients", in 5th International Conference on Health Informatics (HEALTHINF 2012), Vilamoura, Portugal, 2012.
  • J. Melo, J. Arrais, P. Lopes, N. Rosa, M. J. Correia, M. Barros, and J. L. Oliveira, "OralCard – web information system for oral health", in 5th International Conference on Health Informatics (HEALTHINF 2012), Vilamoura, Portugal, 2012.
  • L. Bastião, C. Costa, A. Silva, and J. L. Oliveira, "A PACS Gateway to the Cloud," in 6th Iberian Conference on Information Systems and Technologies (CISTI 2011), Chaves, Portugal, 2011, pp. 519-524.
  • D. Campos, D. Rebholz-Schuhmann, S. Matos, and J. L. Oliveira, "A CRF-based approach to harmonize heterogeneous gene/protein annotations," in Second CALBC Workshop, Hinxton, UK, 2011.
  • P. Lopes and J. L. Oliveira, "COEUS: A Semantic Web Application Framework," in Semantic Web Applications and Tools for Life Sciences (SWAT4LS 2011), London, UK, 2011, pp. 87-90.
  • P. Lopes and J. L. Oliveira, "A Semantic Web Application Framework for Health Systems Interoperability," in Proceedings of the first international workshop on Managing interoperability and complexity in health systems (MIXHS'11), Graz, Austria, 2011, pp. 87-90.
  • P. Lopes and J. L. Oliveira, "Towards Knowledge Federation in Biomedical Applications," in Proceedings of the 7th International Conference on Semantic Systems (I-Semantics 2011), Graz, Austria, 2011, pp. 729-734.
  • P. Tavares, P. Gonçalves, and J. L. Oliveira, "An IDE for NETCONF management applications " in 2011 Latin American Network Operations and Management Symposium (LANOMS 2011) - (Best paper award), Quito, Ecuador, 2011.
  • S. Matos and J. L. Oliveira, "Prioritizing Literature Search Results Using a Training Set of Classified Documents," in 5th International Conference on Practical Applications of Computational Biology & Bioinformatics (Pacbb 2011), 2011, pp. 381-388.
  • T. Pedrosa, R. P. Lopes, J. C. Santos, C. Costa, and J. L. Oliveira, "Hybrid Electronic Health Records," in International Conference on Health Informatics (Healthinf 2011), 2011, pp. 571-574.
  • L. Ribeiro, C. Costa, I. Blanquer, and J. L. Oliveira, "On demand ihe xds document registries on the cloud," in 29th International EuroPACS Meeting (CARS 2011), Berlin, Germany, 2011, pp. 297-298.
  • C. Santos, T. Pedros, C. Costa, and J. L. Oliveira, "On the Use of Openehr in a Portable Phr," in International Conference on Health Informatics (Healthinf 2011), 2011, pp. 351-356.
  • J. Arrais and J. L. Oliveira, "Gene-disease prioritization through biomedical networks," in 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010), Corfu, Greece, 2010.
  • J. Arrais and J. L. Oliveira, "On the exploitation of cloud computing in Bioinformatics," in 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010), Corfu, Greece, 2010.
  • D. Campos, S. Matos, and J. L. Oliveira, "Recognition of gene/protein names using Conditional Random Fields," in International Joint Conference on Knowledge Discovery and Information Retrieval (KDIR 2010), Valencia, Spain, 2010.
  • P. Lopes, D. Campos, and J. L. Oliveira, "A tagging system for bioinformatics resources," in 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010), Corfu, Greece, 2010.
  • P. Lopes and J. L. Oliveira, "A Holistic Approach for Integrating Genomic Variation Information," in Xth Spanish Symposium on Bioinformatics (JBI2010), Malaga, Spain, 2010.
  • P. Lopes and J. L. Oliveira, "An extensible platform for variome data integration," in 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010), Corfu, Greece, 2010.
  • J. P. Lousado, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Análise da evolução de repetições de codões e de aminoácidos em dados biológicos," in 5th Iberian Conference on Information Systems and Technologies (CISTI 2010), Santiago de Compostela, Spain, 2010.
  • F. Martin-Sanchez, V. Lopez-Alonso, L. Salamanca, J. L. Oliveira, and E. Andres, "Managing Knowledge Related to the Clinical Relevance of Biomarkers: An Example in Parkinson’s Disease," in 2010 AMIA Summit on Translational Bioinformatics, San Francisco, CA, USA, 2010.
  • S. Matos, D. Campos, and J. L. Oliveira, "Vector-space models and terminologies in gene normalization and document classification," in BioCreative III Workshop, Bethesda, MD USA, 2010.
  • T. Pedrosa, R. P. Lopes, J. C. Santos, C. Costa, and J. L. Oliveira, "Towards an EHR architecture for mobilde citizens," in International Conference on Health Informatics (Healthinf 2010), Valencia, Spain, 2010.
  • L. S. Ribeiro, L. Bastião, C. Costa, and J. L. Oliveira, "Email-P2P Gateway to Distributed Medical Imaging Repositories," in International Conference on Health Informatics (Healthinf 2010), Valencia, Spain, 2010.
  • L. S. Ribeiro, C. Costa, and J. L. Oliveira, "A Proxy of DICOM services," in SPIE Medical Imaging 2010, S. Diego, CA, USA, 2010.
  • J. C. Santos, T. Pedrosa, C. Costa, and J. L. Oliveira, "Modelling a Portable Personal Health Record," in International Conference on Health Informatics (Healthinf 2010), Valencia, Spain, 2010.
  • J. C. Santos, T. Pedrosa, C. Ferreira, C. Costa, and J. L. Oliveira, "Gathering and Managing Complementary Diagnostic Tests," in 5th Iberian Conference on Information Systems and Technologies (CISTI 2010), Santiago de Compostela, Spain, 2010.
  • J. Arrais, J. Pereira, P. Lopes, S. Matos, and J. L. Oliveira, "Improving cross mapping in biomedical databases," in 4th International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2010), Guimarães, Portugal, 2010.
  • J. P. Lousado, J. L. Oliveira, G. Moura, and M. A. S. Santos, "An application for study tandem repeats in ortologous genes," in 4th International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2010), Guimarães, Portugal, 2010.
  • S. Matos, J. Arrais, and J. L. Oliveira, "Expanding Gene-based PubMed Queries," in 4th International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2010), Guimarães, Portugal, 2010.
  • L. S. Ribeiro, C. Costa, and J. L. Oliveira, "A Distributed and Reliable DICOM Storage Facility," in 28th International EuroPACS Meeting (CARS 2010), Geneva, Switzerland, 2010, pp. 161-168.
  • P. Gonçalves, R. Azevedo, D. Gomes, J. L. Oliveira, and R. L. Aguiar, "Evaluation of Policy Based Admission Control Mechanisms in NGN," in 16th International Conference on Telecommunications (ICT 2009), Marrakech, Morocco, 2009.
  • P. Gonçalves, J. L. Oliveira, and R. L. Aguiar, "An evaluation of network management protocols," in 11th IFIP/IEEE International Symposium on Integrated Network Management (IM 2009), New York, USA, 2009.
  • J. P. Lousado, G. Moura, M. A. S. Santos, and J. L. Oliveira, "Analysing the evolution of repetitive strands in genomes," in 3rd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2009), 2009.
  • P. Lopes, J. Arrais, and J. L. Oliveira, "A Client-side Workflow Management System," in 3rd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2009), 2009.
  • P. Lopes, D. Pinto, D. Campos, and J. L. Oliveira, "Arabella: A Directed Web Crawler," in International Conference on Knowledge Discovery and Information Retrieval (KDIR 2009), Madeira, Portugal, 2009.
  • P. Lopes, J. Arrais, and J. L. Oliveira, "Link Integrator: A Link-based Data Integration Architecture," in International Conference on Knowledge Discovery and Information Retrieval (KDIR 2009), Madeira, Portugal, 2009.
  • P. Gonçalves, C. Figueira, R. Azevedo, R. L. Aguiar, and J. L. Oliveira, "A Graphical User Interface for Policy Composition in CIM-SPL " in 11th IFIP/IEEE International Conference on Ultra Modern Telecomunications (ICUMT 2009), S. Petersburg, Russia, 2009.
  • P. Gonçalves, J. L. Oliveira, R. L. Aguiar, and R. Azevedo, "Managing QoS in a NGN using a PBM approach," in 4th International Conference on Systems and Networks Comunications (ICSNC 2009), Porto, Portugal, 2009.
  • D. Polónia, C. Costa, J. L. Oliveira, and A. M. O. Duarte, "Inequality problems in the distribution of radiologists in Portugal: Requirements for the creation of an imaging marketplace," in eChallenges e-2009, Ankara, Turkey, 2009.
  • P. Lopes and J. L. Oliveira, "Integration of Variome Data Through a Link Discovery Strategy," in Jornadas de Bioinformática (JB 2009), Lisbon, Portugal, 2009.
  • M. Pinheiro, M. J. Simões, C. Egas, and J. L. Oliveira, "Identifying SNPs candidates using 454 sequencing technology," in Jornadas de Bioinformática (JB 2009), Lisbon, Portugal, 2009.
  • S. Matos, J. Arrais, J. Maia-Rodrigues, and J. L. Oliveira, "QuExT: a concept-based query expansion approach for literature retrieval from MEDLINE," in Jornadas de Bioinformática (JB 2009), Lisbon, Portugal, 2009.
  • J. Arrais, J. Pereira, J. Fernandes, and J. L. Oliveira, "GeNS: A Biological Data Integration Platform," in World Academy of Science, Engineering and Technology (WASET 2009), Venice, Italy, 2009, pp. 416 - 421.
  • P. Almeida, L. Carreto, and J. L. Oliveira, "Design of microarray probes for detection of mutations," in International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies (BIOTECHNO'2008), Bucharest, Romania, 2008.
  • J. Arrais, L. Carreto, M. A. S. Santos, and J. L. Oliveira, "A Microarray Information Database," in International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies (BIOTECHNO'2008), Bucharest, Romania, 2008.
  • J. P. Lousado, G. Moura, M. A. S. Santos, and J. L. Oliveira, "Exploiting codon-triplets association for genome primary structure analysis," in International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies (BIOTECHNO'2008), Bucharest, Romania, 2008.
  • M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Studying the evolution of codon context in conserved gene sequences," in International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies (BIOTECHNO'2008), Bucharest, Romania, 2008.
  • D. Polónia, A. Silva, C. Costa, and J. L. Oliveira, "Brokerage mechanism proposal for teleradiology studies distribution," in Proceedings of SPIE - Volume 6919, Medical Imaging 2008: PACS and Imaging Informatics, San Diego, USA, 2008.
  • J. P. Lousado, G. Moura, M. A. S. Santos, and J. L. Oliveira, "GeneSplit – Uma Aplicação para o Estudo de Associações de Codões e de Aminoácidos em ORFeomas " in 3ª Conferencia Ibérica de Sistemas y Tecnologías de la Información (CISTI 2008), Ourense, Spain, 2008.
  • P. Lopes, J. Arrais, and J. L. Oliveira, "Dynamic Service Integration using Web-based Workflows," in The 10th International Conference on Information Integration and Web-based Applications & Services (iiWAS 2008), Linz, Austria, 2008.
  • J. Arrais, J. G. L. M. Rodrigues, and J. L. Oliveira, "Improving literature searches in gene expression studies " in 2nd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2008), 2008.
  • A. Freitas, M. Pinheiro, V. Afreixo, J. Duarte, J. L. Oliveira, G. Moura, and M. A. S. Santos, "A median-based iterative signature algorithm," in Proceedings of the satellite meeting of the 56th session of the International Statistical Institute, Statistics for Data Mining Learning and Knowledge Extraction, Aveiro, Portugal, 2007, pp. 411-418.
  • V. Afreixo, A. Freitas, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Exploiting a Biclustering algorithm in ORFeome analysis," in Proceedings of the 2007 VLDB Workshop on Data Mining in Bioinformatics, Vienna, Austria, 2007.
  • D. Polónia, C. Costa, and J. L. Oliveira, "A Model to Optimize the Use of Imaging Equipment and Human Skills Scattered in Very Large Geographical Areas," in 9th International Conference on Enterprise Information Systems (ICEIS'2007), Madeira, Portugal, 2007.
  • D. Polónia, C. Costa, A. Silva, and J. L. Oliveira, "PACS procurement planning and negotiation strategies for regional health institutions in the National Health Service of an EU country," in 25th International EuroPACS Conference (EuroPACS 2007), Berlin, Germany, 2007.
  • C. Costa, J. L. Oliveira, A. Silva, V. Gama, and J. Ribeiro, "Enhanced PACS to support Demanding Telemedicine and Telework Scenarios," in International Journal of Computer Assisted Radiology and Surgery, Vol 2, Sup 1 , Berlin, Germany, 2007.
  • J. Arrais, D. Polónia, and J. L. Oliveira, "A prospective study on the integration of microarrays data in HIS/ERP," in Biological and Medical Data Analysis (ISBMDA' 2006), Lecture Notes in Computer Science - Volume 4345, Thessaloniki, Greece, 2006, pp. 231-239.
  • J. Arrais, J. L. Oliveira, G. Grimes, S. Moodie, K. Robertson, and P. Ghazal, "Microarray data sharing in BioMedicine," in The XX International Congress of the European Federation for Medical Informatics (MIE'2006), Maastricht, Netherlands, 2006.
  • D. Polónia, C. Costa, and J. L. Oliveira, "A PACS based GRID of resources," in 24th International EuroPACS Conference (EuroPACS 2006), Trondheim, Norway, 2006.
  • D. Polónia, C. Costa, and J. L. Oliveira, "Optimizing PACS and imaging resources," in The XX International Congress of the European Federation for Medical Informatics (MIE'2006), Maastricht, Netherlands, 2006.
  • H. Veiga, T. Pinho, J. L. Oliveira, R. Valadas, P. Salvador, and A. Nogueira, "Active traffic monitoring for heterogeneous environments," in 4th International Conference on Networking (ICN'05), Reunion Island, 2005.
  • J. L. Oliveira, P. Gonçalves, W. Dziunikowski, J. Wszolek, S. Rasmussen, R. P. Lopes, and V. Roque, "Policy-Based Network Management in an Integrated Mobile Network," in Advanced Industrial Conference on Telecommunications (AICT'2005), Lisbon, Portugal, 2005.
  • D. Polónia, J. L. Oliveira, and N. P. Rocha, "Overview of information systems training in Portuguese medicine courses," in Health and Medical Informatics Applications - Educational Aspects (EFMI-STC 2005), Athens, Greece, 2005.
  • D. Polónia and J. L. Oliveira, "Health Information Systems and Telematics: A best of breed evaluation framework for the Portuguese case," in European Health Management Association Annual Conference 2005 (EHMA'2005), Barcelona, Spain, 2005.
  • W. Dziunikowski, J. Wszolek, P. Gonçalves, S. Rasmussen, A. Cuevas, R. P. Lopes, V. Roque, and J. L. Oliveira, "Using CIM Extensions to model Managed Entities in Heterogeneous Networks," in IEEE International Workshop on Management Issues and Challenges in Mobile Computing (MICMC'2005), Nice, France, 2005.
  • D. Polónia, C. Costa, and J. L. Oliveira, "Architecture evaluation for the implementation of a Regional Integrated Electronic Health Record," in The XIX International Congress of the European Federation for Medical Informatics (MIE'2005), Geneve, Switzerland, 2005.
  • C. Costa, J. L. Oliveira, A. Silva, V. Ribeiro, and J. Ribeiro, "A Telemedicine Platform for Cardiovascular Ultrasound," in The XIX International Congress of the European Federation for Medical Informatics (MIE'2005), Geneve, Switzerland, 2005.
  • J. Arrais, L. Silva, M. Rodrigues, L. Carreto, J. L. Oliveira, and M. A. S. Santos, "Why Another Microarrays LIMS," in The 3rd European Medical and Biological Engineering Conference (EMBEC'05), Prague, Czech Republic, 2005.
  • A. Freitas, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "A New Limiting Distribution for the Statistic Test for the Homogeneity of two Multinomial Populations," in Workshop on Statistics in Genomics and Proteomics, Lisboa, Portugal, 2005.
  • R. P. Lopes, N. Raimundo, M. Varanda, J. L. Oliveira, and V. Roque, "Executable Graphics for PBNM," in Operations and Management in IP-Based Networks (IPOM'2005), Lecture Notes in Computer Science - Volume 3751, Barcelona, Spain, 2005.
  • M. Pinheiro, J. L. Oliveira, M. A. S. Santos, H. Rocha, M. L. Cardoso, and L. Vilarinho, "Results of a Biomedical Application in Newborn Screening Programs," in The 3rd European Medical and Biological Engineering Conference (EMBEC'05), Prague, Czech Republic, 2005.
  • P. Gonçalves, J. L. Oliveira, and R. Aguiar, "A WBEM based solution for a 4G network integrated management," in International Conference on Networking and Services (ICNS'2005), Tahiti, French Polynesia, 2005.
  • C. Costa, J. L. Oliveira, A. Silva, V. Ribeiro, and J. Ribeiro, "Data Management and Visualization Issues in a Fully Digital Echocardiography Laboratory," in Biological and Medical Data Analysis (ISBMDA' 2005), Lecture Notes in Computer Science - Volume 3745, Aveiro, Portugal, 2005, pp. 13-21.
  • G. Dias, J. L. Oliveira, F. Vicente, and F. Martin-Sanchez, "Integration of Genetic and Medical Information Through a Web Crawler System," in Biological and Medical Data Analysis (ISBMDA' 2005), Lecture Notes in Computer Science - Volume 3745, Aveiro, Portugal, 2005, pp. 78-88.
  • M. García-Remesal, V. Maojo, H. Billhardt, J. Crespo, R. Alonso-Calvo, D. Pérez, F. Martín, V. López, J. Sánchez, F. Vicente, M. García-Rojo, A. Gómez de la Cámara, A. Sousa, J. L. Oliveira, I. Oliveira, M. Santos, and A. Babic, "Designing New Methodologies for Integrating Biomedical Information in Clinical Trials," in EuroMISE 2004, Prague, Czech Republic, 2004.
  • I. Oliveira, J. L. Oliveira, F. Martin-Sanchez, V. Maojo, and A. S. Pereira, "Biomedical information integration for health applications with Grid: a requirements perspective," in Healthgrid 2004, Clermont-Ferrand, France, 2004.
  • C. Costa, J. L. Oliveira, and A. Silva, "E-Services in Mission-Critical Organizations: Identification Enforcement," in 6th International Conference on Enterprise Information Systems (ICEIS'2004), Porto, Portugal, 2004.
  • V. Roque, J. L. Oliveira, and R. P. Lopes, "Solving Transactional Control in Current Management Frameworks," in 6th International Conference on Enterprise Information Systems (ICEIS'2004), Porto, Portugal, 2004.
  • D. Polónia, I. Oliveira, and J. L. Oliveira, "A Business Process Model for Public Health Information Systems: A Governmental Perspective," in 6th International Conference on Enterprise Information Systems (ICEIS'2004), Porto, Portugal, 2004.
  • F. Vicente, I. Hermosilla, M. García-Remesal, D. Pérez del Rey, B. Romero, I. Oliveira, J. L. Oliveira, A. S. Pereira, and F. Martin-Sanchez, "Infogenmed: Un Laboratorio Virtual para la Integración de Información Clínica y Genética en Aplicaciones Médicas," in VII Congreso Nacional de Informático de la Salud (Inforsalud'2004), Madrid, Spain, 2004.
  • J. L. Oliveira, G. Dias, I. Oliveira, P. Rocha, I. Hermosilla, F. Vicente, I. Spiteri, F. Martin-Sanchez, and A. S. Pereira, "DiseaseCard: a web-based tool for the collaborative integration of genetic and medical information," in Biological and Medical Data Analysis (ISBMDA'2004), Lecture Notes in Computer Science - Volume 3337, Barcelona, Spain, 2004.
  • M. Pinheiro, J. L. Oliveira, M. A. S. Santos, H. Rocha, M. L. Cardoso, and L. Vilarinho, "NeoScreen: A software application for MS/MS newborn screening analysis," in Biological and Medical Data Analysis (ISBMDA'2004), Lecture Notes in Computer Science - Volume 3337, Barcelona, Spain, 2004.
  • C. Costa, A. Silva, J. L. Oliveira, A. S. Pereira, and V. Ribeiro, "A New Concept for an Integrated Healthcare Access Model," in Medical Informatics Europe (MIE'2003), Saint Malo, France, 2003.
  • R. P. Lopes and J. L. Oliveira, "Delegation of Expressions for Distributed SNMP Information Processing," in IFIP/IEEE International Symposium on Integrated Network Management (IM'2003), Colorado, USA, 2003.
  • C. Costa, J. L. Oliveira, A. Silva, and V. Gama, "An Integrated Access Interface to Multimedia EPR," in 21st International EuroPACS Meeting (EuroPACS'2003), London, United Kingdom, 2003.
  • V. Roque, J. L. Oliveira, and R. P. Lopes, "Policies Composition Through Graphical Components," in IEEE 5th International Conference on Enterprise Information Systems (ICEIS'2003), Angers, France, 2003.
  • C. Costa, J. L. Oliveira, and A. Silva, "A User-Oriented Model to Manage Multiple Digital Credentials," in IEEE 5th International Conference on Enterprise Information Systems (ICEIS'2003), Angers, France, 2003.
  • R. P. Lopes and J. L. Oliveira, "AgentAPI: An API for the Development of Managed Agents," in IEEE 5th International Conference on Enterprise Information Systems (ICEIS'2003), Angers, France, 2003.
  • R. P. Lopes and J. L. Oliveira, "Practical Management based on SNMP Expressions," in IEEE 5th International Conference on Enterprise Information Systems (ICEIS'2003), Angers, France, 2003.
  • C. Costa, J. L. Oliveira, and A. Silva, "Critical Information Systems Authentication based on PKC and Biometrics," in International Conference on Web Engineering (ICWE'2003), Lecture Notes in Computer Science - Volume 2722 / 2003, Oviedo, Spain, 2003, pp. 543-544.
  • C. Costa, J. L. Oliveira, and A. Silva, "Electronic Patient Record Virtually Unique based on a Crypto Smart Card," in International Conference on Web Engineering (ICWE'2003), Lecture Notes in Computer Science - Volume 2722 / 2003, Oviedo, Spain, 2003, pp. 545-546.
  • R. P. Lopes and J. L. Oliveira, "A Mobile Agent Navigation Manager," in 5th International Workshop on Mobile Agents for Telecomunication Applications (MATA'2003), Marrakech, Morocco, 2003.
  • R. P. Lopes and J. L. Oliveira, "A Uniform Resource Identifier Scheme for SNMP," in IEEE Workshop on IP Operations and Management (IPOM'2002), Dallas, USA, 2002.
  • R. P. Lopes and J. L. Oliveira, "Multi-Management Schemes for MAF Platforms," in International Workshop on Mobile Agents for Telecommunications Applications (MATA'2002), Barcelona, Spain, 2002.
  • V. Silva, J. A. Fonseca, and J. L. Oliveira, "Java Environment for a JUMPtec WebtoNet Embedded System," in Satellite Workshop of on Java in Embedded Systems (ARCS'2002), Karlsruhe, Germany, 2002.
  • R. P. Lopes and J. L. Oliveira, "A Multi-protocol architecture for SNMP entities," in IEEE Workshop on IP Operations and Management (IPOM'2002), Dallas, USA, 2002.
  • C. Costa, J. L. Oliveira, and A. Silva, "A Trusted Brokering Service for PKI Interoperability and Thin-Clients Integration," in IEEE Third International Conference on Enterprise Information Systems (ICEIS'2001), Setúbal, Portugal, 2001.
  • R. P. Lopes and J. L. Oliveira, "SNMP Management of MASIF Platforms," in IEEE/IFIP International Symposium On Integrated Network Management Proceedings (IM'2001), Seattle, USA, 2001.
  • R. P. Lopes and J. L. Oliveira, "A New Mechanism for Distributed Managers Persistence," in IEEE Third International Conference on Enterprise Information Systems (ICEIS'2001), Setúbal, Portugal, 2001.
  • J. L. Oliveira and R. Aguiar, "QoS Negotiation Based on Management Delegates," in IEEE Third International Conference on Enterprise Information Systems (ICEIS'01), Setúbal, Portugal, 2001.
  • R. P. Lopes and J. L. Oliveira, "On the Use of Mobility in Distributed Network Management," in IEEE 33 rd Hawaii International Conference on System Sciences (HICSS'33), Hawaii, USA, 2000.
  • R. P. Lopes and J. L. Oliveira, "Managing Mobile Agents with SNMP," in Simposio Espanhol de Informática Distribuida (SEID'2000), Ourense, Spain, 2000, pp. 27-34.
  • R. P. Lopes and J. L. Oliveira, "Distributed Management: Implementation Issues," in International Conference on Advances in Infrastructure for Electronic Bussiness, Science, and Education on the Internet (SSGRR'2000), L'Aquila, Italy, 2000.
  • R. P. Lopes, "The SNMP Evolution: Lost on Simplicity or on Functionality," in 4th World Multiconference on Systemics, Cybernetics and Informatics (SCI'2000), Orlando, USA, 2000.
  • J. L. Oliveira, R. Aguiar, and R. P. Lopes, "Integration of Service, Network and System Management: Current and Forthcoming Trends," in 4th World Multiconference on Systemics, Cybernetics and Informatics (SCI'2000), Orlando, USA, 2000.
  • J. L. Oliveira and R. Aguiar, "Network and Desktop Management Convergence," in IEEE 33rd Hawaii International Conference on System Sciences (HICSS'33), Hawaii, USA, 2000.
  • S. Santana, J. L. Oliveira, and H. Diz, "Capturing Knowledge Through Software Agents," in International Conference on Advances in Infrastructure for Electronic Bussiness, Science, and Education on the Internet (SSGRR'2000), L'Aquila, Italy, 2000.
  • J. L. Oliveira and R. P. Lopes, "Distributed Management based on Mobile Agents," in MATA'99, 1999, pp. 243-258.
  • J. A. Martins, N. P. Rocha, J. L. Oliveira, and J. S. Pinto, "Learning and Teaching Data Communications Basic Concepts through the Implementation of a Simulador for the HDLC Protocol," in Combelet'99, 1999.
  • R. Aguiar, J. L. Oliveira, A. Richardson, and D. O'Sullivan, "The Internet: Source of expectations," in Third European Workshop on Techno-Economics for Multimedia Networks and Services (TERA'99), Aveiro, Portugal, 1999.
  • J. Mota, J. L. Oliveira, and F. Ramos, "A Remote Meteorological Data Services Supported on CORBA," in 1st International Conference on Enterprise Information Systems (ICEIS'99), Setúbal, Portugal, 1999.
  • R. Aguiar and J. L. Oliveira, "Issues on Internet Evolution and Management," in 1st International Conference on Enterprise Information Systems (ICEIS'99), Setúbal, Portugal, 1999.
  • R. P. Lopes and J. L. Oliveira, "Software Agents in Network Management," in 1st International Conference on Enterprise Information Systems (ICEIS'99), Setúbal, Portugal, 1999.
  • J. L. Oliveira and N. P. Rocha, "A Longitudinal Study about the Education of Information Engineering," in Enhancement of Education in Electrical and Informational Engineering (EAEEIE'98), Lisbon, Portugal, 1998.
  • J. L. Oliveira and N. P. Rocha, "Towards Management Frameworks on Broadband Networks," in 3rd Malaysia International Conference On Communications (MICC'97), Kuala Lumpur, Malaysia, 1997.
  • R. P. Lopes and J. L. Oliveira, "An Approach to Self-Management Based on Automatic Diagnostics," in 3rd Malaysia International Conference On Communications (MICC'97), Kuala Lumpur, Malaysia, 1997.
  • N. P. Rocha, L. M. Pereira, C. Cidade, J. L. Oliveira, and J. Pavão, "Videotelephony and Support Services," in 3rd Malaysia International Conference On Communications (MICC'97), Kuala Lumpur, Malaysia, 1997.
  • J. A. Martins and J. L. Oliveira, "Scheduling and Processing Network Management Operations," in 15th IASTED International Conference on Applied Informatics, Innsbruck, Austria, 1997.
  • N. P. Rocha, J. L. Oliveira, L. M. Pereira, and C. Cidade, "Broadband Videotelephony Supporting Services for Disable and Elderly People," in 15th IASTED International Conference on Applied Informatics, Innsbruck, Austria, 1997.
  • N. P. Rocha, J. L. Oliveira, L. M. Pereira, and E. Saragoça, "Enabling Computer Applications in Residential Environments," in The 19th Convention of Electrical and Electronics Engineers in Israel,, Jerusalem, Israel, 1996.
  • J. L. Oliveira and J. A. Martins, "Framework for the Development and Integration of Management Applications," in Summer School on Telecommunications Services (Eunice'96), Lausanne, Suisse, 1996.
  • J. L. Oliveira and J. A. Martins, "A Management Application Programming Interface," in Fifth IFIP/IEEE International Workshop on Distributed Systems: Operations & Management (DSOM'94), Toulouse, France, 1994.
  • J. L. Oliveira and J. A. Martins, "A Methodology to Represent Logical Network Topology Information," in IEEE/IFIP Network Operations and Management Symposium (NOMS'94), Orlando, USA, 1994.
  • J. L. Oliveira and J. A. Martins, "Management of PACS Resources," in 11th International EuroPACS Meeting (EuroPACS'93), Rennes, France, 1993.
  • N. P. Rocha, A. Carvalho, and J. L. Oliveira, "Defining Managed Objects for Integrated Management System with Monitoring Agents," in ERCIM Workshop on Network Management, Crete, Greece, 1992.
  • J. L. Oliveira and J. A. Martins, "A Descriptive Language For Network Topologies," in ERCIM Workshop on Network Management, Crete, Greece, 1992.
  • N. P. Rocha, A. Agapito, J. L. Oliveira, P. G. Oliveira, and A. P. Alves, "High Speed Backbone Concentrator," in 6th Mediterranean Electrotechnical Conference (Melecom'91), Ljubljana, Slovenia, 1991.
  • J. A. Martins, N. P. Rocha, J. L. Oliveira, J. S. Pinto, and C. Toscano, "Integrated Management System for interconnected Local Area Networks," in 6th Mediterranean Electrotechnical Conference (Melecom'91), Ljubljana, Slovenia, 1991.
  • J. A. Martins, J. S. Pinto, and J. L. Oliveira, "Measuring, Characterizing and Generating LAN Traffic," in IEEE International Conference on Communications Systems (ICCS'90 ), Singapure, 1990.
  • J. S. Pinto, J. L. Oliveira, and J. A. Martins, "PC Workstation for Ethernet Monitoring and Management," in SBT/IEEE International Telecommunications Symposium (ITS'90), Rio de Janeiro, Brasil, 1990.
 

National
Conferences
(full papers)

    Collapse List
  • A. Freitas, V. Afreixo, M. Pinheiro, J. L. Oliveira, and M. A. S. Santos, "Uma avaliação da performance do algoritmo de bi-classificação ISA-mediana," in XVI Jornadas de Classificação e Análise de Dados (JOCLAD 2009), Faro, Portugal, 2009.
  • S. Matos, A. Barreiro, and J. L. Oliveira, "Syntactic Parsing for Bio-Molecular Event Detection from Scientific Literature " in 14th Portuguese Conference on Artificial Intelligence (EPIA 2009), Aveiro, Portugal, 2009.
  • P. Lopes and J. L. Oliveira, "Cloud Computing and Digital Libraries : First Perspectives on a Future Technological Alliance " in 9ª Conferência da Associação Portuguesa de Sistemas de Informação (CAPSI 2009), Viseu, Portugal, 2009.
  • T. Pedrosa, C. Costa, R. P. Lopes, and J. L. Oliveira, "Virtual Health Card System," in Inforum 2009, Lisbon, Portugal, 2009.
  • J. Duarte, A. Freitas, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "ISA: um algoritmo de bi-classificação?," in Actas do XIV Congresso Nacional da Sociedade Portuguesa de Estatística, Covilhã, Portugal, 2007, pp. 341-349.
  • A. Freitas, J. Duarte, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Homo sapiens versus Pan troglodytes: quão diferentes são?," in Actas do XIV Congresso Nacional da Sociedade Portuguesa de Estatística, Covilhã, Portugal, 2007, pp. 411-418.
  • D. Polónia, J. L. Oliveira, and M. O. Duarte, "Information Systems (IS) in the Third and Fourth Generation Mobile Operator," in 5ª Conferência da Associação Portuguesa de Sistemas de Informação (CAPSI'2004), Lisbon, 2004.
  • V. Roque, R. P. Lopes, and J. L. Oliveira, "Utilização de Políticas em Gestão de Redes e Sistemas de Informação," in 5ª Conferência da Associação Portuguesa de Sistemas de Informação (CAPSI'2004), Lisbon, 2004.
  • H. Veiga, T. Pinho, J. L. Oliveira, R. Valadas, P. Salvador, and A. Nogueira, "Implementação, validação e exploração do sistema de monitorização activa OWAMP," in 7ª Conferência de Redes de Computadores (CRC'2004), Leiria, Portugal, 2004.
  • R. P. Lopes, J. L. Oliveira, and V. Roque, "Gestão de Redes com Base em Políticas - Uma Abordagem Prática," in 7ª Conferência de Redes de Computadores (CRC'2004), Leiria, Portugal, 2004.
  • V. Roque, R. P. Lopes, and J. L. Oliveira, "Towards Transactional Integrity Issues in Policy Based Network Management Systems," in 7ª Conferência de Redes de Computadores (CRC'2004), Leiria, Portugal, 2004.
  • I. Oliveira, J. L. Oliveira, M. Santos, F. Martin-Sanchez, and A. S. Pereira, "On the requirements of biomedical information tools for health applications: the INFOGENMED case study," in 7th Portuguese Conference on Biomedical Engineering (BioEng’2003), Lisbon, Portugal, 2003.
  • V. Roque, J. L. Oliveira, and R. P. Lopes, "Visual Composition of Management Policies," in 4rd Conference on Telecommunications (ConfTele'2003), Aveiro, Portugal, 2003.
  • R. P. Lopes and J. L. Oliveira, "Development of Management Entities for Heterogeneous Scenarios," in 4rd Conference on Telecommunications (ConfTele'2003), Aveiro, Portugal, 2003.
  • C. Costa, J. L. Oliveira, and A. Silva, "Authentication Model to Enforce Network Entities Identification," in 4rd Conference on Telecommunications (ConfTele'2003), Aveiro, Portugal, 2003.
  • V. Roque, J. L. Oliveira, and R. P. Lopes, "Controlo Transaccional em Sistemas de Gestão de Redes por Políticas," in 6ª Conferência sobre Redes de Computadores (CRC'2003), Bragança, Portugal, 2003.
  • N. P. Rocha, P. Trigueiros, A. Costa, A. Mouro, T. Silva, and J. L. Oliveira, "NETMAPA - Sistema Móvel de Apoio à Orientação e Mobilidade de Pessoas com Deficiência Visual," in 4º Congresso Luso Moçambicano de Engenharia, Maputo, Mozambique, 2003.
  • T. Silva and J. L. Oliveira, "Interfaces de voz para a Web," in Conferência Científica e Tecnológica em Engenharia (CCTE'2002), Lisbon, Portugal, 2002.
  • V. Silva, J. A. Fonseca, and J. L. Oliveira, "Ambiente Java para Sistemas Integrados de Recursos Limitados," in Conferência Científica e Tecnológica em Engenharia (CCTE'2002), Lisbon, Portugal, 2002.
  • V. Silva, J. A. Fonseca, J. L. Oliveira, and A. Mota, "Using Java Language for Control Algoritms," in 5th Portuguese Conference on Automatic Control (Controlo'2002), Aveiro, Portugal, 2002.
  • J. C. Santos, J. L. Oliveira, and C. Costa, "A User-oriented Multi-service Access Control System," in 5ª Conferência sobre Redes de Computadores (CRC'2002), Faro, Portugal, 2002.
  • R. P. Lopes and J. L. Oliveira, "Esquema de Identificação Uniforme de Recursos SNMP," in 5ª Conferência sobre Redes de Computadores (CRC'2002), Faro, Portugal, 2002.
  • C. Costa, J. L. Oliveira, and A. Silva, "Um Novo Mecanismo de Autenticação para Sistemas de Informação Clínica," in 4ª Conferência sobre Redes de Computadores (CRC'2001), Covilhã, Portugal, 2001.
  • C. Costa, J. L. Oliveira, and A. Silva, "Engenharia de Segurança em Sistemas de Informação Clínica," in 2º Congresso Luso Moçambicano de Engenharia, Maputo, Mozambique, 2001, pp. F19-26.
  • R. P. Lopes and J. L. Oliveira, "Distributed Management of Mobile Components," in 3rd Conference on Telecommunications (ConfTele'2001), Figueira da Foz, Portugal, 2001, pp. 519-522.
  • T. Silva, J. L. Oliveira, N. P. Rocha, and P. Trigueiros, "Falar com a Web - Um Caso de Estudo," in 4ª Conferência sobre Redes de Computadores (CRC'2001), Covilhã, Portugal, 2001.
  • V. Silva, J. L. Oliveira, and J. A. Fonseca, "Ambiente de Execução de Aplicações Java para Sistemas de Recursos Limitados," in 4ª Conferência sobre Redes de Computadores (CRC'2001), Covilhã, Portugal, 2001.
  • A. Fonte and J. L. Oliveira, "Avaliação das Potencialidades de CORBA como Infra-Estrutura de Gestão de Redes.," in 3ª Conferência sobre Redes de Computadores (CRC'2000), Viseu, Portugal, 2000.
  • R. P. Lopes and J. L. Oliveira, "Descrição e Implementação de uma MIB para Sistemas MASIF," in 3ª Conferência sobre Redes de Computadores (CRC'2000), Viseu, Portugal, 2000.
  • R. P. Lopes and J. L. Oliveira, "Implementação e Avaliação de Gestão remota sobre DISMAN," in 2ª Conferência sobre Redes de Computadores (CRC'99), Évora, Portugal, 1999.
  • J. L. Oliveira, R. P. Lopes, R. Aguiar, and L. F. Lobo, "Gestão de Sistemas: Problemas e soluções baseados em casos de estudo," in Encontro de Engenharia Informática 99 - Ordem dos Engenheiros (EEI'99), Braga, Portugal, 1999.
  • V. Roque and J. L. Oliveira, "Corba, DCOM e JavaRMI," in Encontro de Engenharia Informática 99 - Ordem dos Engenheiros (EEI'99), Braga, Portugal, 1999.
  • R. Martins, S. Bernardo, and J. L. Oliveira, "NetAdmin - Interface Web para HP OpenView," in 1ª Conferência sobre Redes de Computadores (CRC'98), Coimbra, Portugal, 1998.
  • J. L. Oliveira and N. P. Rocha, "Reflexões sobre a Leccionação de Informática no Ensino Universitário," in IV Congresso da Sociedade Portuguesa de Ciências da Educação, Aveiro, Portugal, 1998.
 

Conferences
(Posters)

    Collapse List
  • P. Lopes and J. L. Oliveira, "COEUS: “Semantic Web in a box” for biomedical applications," in 11th European Conference on Computational Biology (ECCB 2012), Basel, Switzerland, 2012.
  • P. Lopes, D. Campos, T. Nunes, and J. L. Oliveira, "Delivering advanced pharmacovigilance with the EU-ADR Web Platform," in 11th European Conference on Computational Biology (ECCB 2012), Basel, Switzerland, 2012.
  • P. Lopes, J. Arrais, and J. L. Oliveira, "A Knowledge Interoperability Framework for Integrating Genotype-to-Phenotype Data," in III Xornadas Galegas de Bioinformatics (XGB 2012), Vigo, Spain, 2011.
  • D. Campos, S. Matos, and J. L. Oliveira, "A machine learning-based tool for biomedical entity recognition (Best Poster)," in III Xornadas Galegas de Bioinformatics (XGB 2012), Vigo, Spain, 2011.
  • J. Arrais and J. L. Oliveira, "Using biomedical networks to gene-disease indentification," in III Xornadas Galegas de Bioinformatics (XGB 2012), Vigo, Spain, 2011.
  • P. Lopes and J. L. Oliveira, "An Integrated View for Human Variome Information," in 14th International Conference on Research in Computational Molecular Biology (RECOMB 2010), Lisbon, Portugal, 2010.
  • P. Gaspar, J. L. Oliveira, J. Frommlet, G. Moura, and M. A. S. Santos, "A gene multi-optimization tool as novel approach to heterologous expression," in 14th International Conference on Research in Computational Molecular Biology (RECOMB 2010), Lisbon, Portugal, 2010.
  • J. Frommet, P. Gaspar, M. Pinheiro, J. L. Oliveira, A. C. Gomes, G. Moura, and M. A. S. Santos, "Integrating tRNA abundance, codon-usage, codon-context and functional rare codon data in de novo synthesis of Plasmodium falciparum genes for optimal expression in Escherichia coli," in 23rd tRNA Workshop (tRNA 2010), Aveiro, Portugal, 2010.
  • J. L. Oliveira, P. Lopes, D. Campos, and C. Pinto, "Integration of genotype to phenotype data on rare diseases," in International Workshop on Genomic Disorders, Disease-Associated Chromosome Rearrangements and Position Effect, Lisbon, Portugal, 2009.
  • J. L. Oliveira and A. Brookes, "GEN2PHEN: Unifying human and model organism genetic variation databases," in International Workshop on Genomic Disorders, Disease-Associated Chromosome Rearrangements and Position Effect, Lisbon, Portugal, 2009.
  • A. J. Brookes, D. Atlan, C. Beroud, E. Birney, S. Brahmachari, A. Cambon-Thomsen, R. Dalgleish, J. d. Dunnen, A. Devereau, C. Diaz, H. Gudbjartsson, I. Gut, T. Kanninen, H. Lehvaslaiho, J. Litton, J. Muilu, J. L. Oliveira, H. Parkinson, G. Patrinos, G. Potamias, E. Wingender, and L. Yip, "GEN2PHEN: An international effort towards the universal databasing of gene-disease relationships," in 40th European Human Genetics Conference (ESHG 2008), Barcelona, Spain, 2008.
  • M. C. Santos, M. Pinheiro, J. L. Oliveira, and M. A. S. Santos, "Comparative tRNomics of a genetic code alteration," in ESF-EMBO Symposium on Comparative Genomics of Eukaryotic Microorganisms: Eukaryotic Genome Evolution, Sant Feliu de Guixols, Spain, 2007.
  • A. Freitas, V. Afreixo, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "A median-based iterative signature algorithm," in XI Conferencia Española y I Encuentro Iberoamericano de Biometría, Salamanca, Spain, 2007.
  • M. Pinheiro, G. Moura, A. Freitas, M. A. S. Santos, and J. L. Oliveira, "A bioinformatics system to analyze sequences at a genomic scale," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • G. Moura, M. Pinheiro, C. Gomes, A. Freitas, J. L. Oliveira, and M. A. S. Santos, "Large Scale Comparative Codon Context Analysis Unveils Novel Rules Governing Gene Evolution," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • J. P. Lousado, G. Moura, M. Pinheiro, J. L. Oliveira, and M. A. S. Santos, "Large Scale Comparative Genomics of Codon Context," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • S. Lima, E. Fonseca, J. L. Oliveira, and C. Egas, "Computational Methodologies for Metagenomics Projects," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • C. Gomes, G. Moura, A. C. Gomes, J. L. Oliveira, M. Pinheiro, A. Freitas, and M. A. S. Santos, "The role of codon context on mRNA decoding error in vivo in yeast," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • A. Freitas, L. Ferreira, J. Duarte, M. Pinheiro, J. L. Oliveira, G. Moura, and M. A. S. Santos, "Homo Sapiens Vs Pan Troglodytes: How Diferent Are They?," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • C. Egas, J. L. Oliveira, M. A. S. Santos, M. S. Costa, and C. Faro, "Whole Genome shotgun mapping of Rubrobacter radiotolerans," in XVth National Congress of Biochemistry (NBC 2006) (Invited talk), Aveiro, Portugal, 2006.
  • L. Carreto, P. Pereira, J. Arrais, J. L. Oliveira, and M. A. S. Santos, "National Facility For DNA Microarrays," in XVth National Congress of Biochemistry (NBC 2006) (Invited talk), Aveiro, Portugal, 2006.
  • J. Arrais, J. L. Oliveira, G. Campos, L. Carreto, and M. A. S. Santos, "Microarray data: from the hybridisation to the analysis," in European Summer School in Biomedical Informatics, Balatonfüred, Hungary, 2006.
  • J. Arrais, L. Carreto, M. A. S. Santos, and J. L. Oliveira, "Collaborative work on microarrays using MAGE-ML," in 9th International Meeting of the Microarray Gene Expression Data Society (MGED9), Seattle, Washington, USA, 2006.
  • J. Arrais, L. Carreto, H. Pais, F. Lopes, M. A. S. Santos, and J. L. Oliveira, "A Laboratory Information Management System for Microarray Data Storage, Sharing and Analysis," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • P. R. Almeida, L. Carreto, J. L. Oliveira, and M. A. S. Santos, "Software-Assisted Design of Probes for SNPs Detection using Oligonucleotide Microarrays: Applications in a Case Study," in XVth National Congress of Biochemistry (NBC 2006) , Aveiro, Portugal, 2006.
  • L. Carreto, M. C. Santos, J. Arrais, M. Rodrigues, L. Silva, J. L. Oliveira, and M. A. S. Santos, "Implementation of a National Facility for DNA Microarrays in Portugal," in 8th International Meeting of the Microarray Gene Expression Data Society (MGED8), Bergen, Norway, 2005.
  • M. Pinheiro, V. Afreixo, G. Moura, A. Freitas, M. A. S. Santos, and J. L. Oliveira, "Bioinformation System for Unveil General Rules of Codon Context," in XIV Congresso Nacional de Bioquímica, Vilamoura, Portugal, 2004.
  • M. Pinheiro, V. Afreixo, G. Moura, G. Dias, A. S. Pereira, A. Valente, M. A. S. Santos, and J. L. Oliveira, "Bioinformation system and statistical methodologies for gene primary structure analysis," in EuroMISE 2004, Prague, Czech Republic, 2004.
  • J. L. Oliveira, M. Pinheiro, M. A. S. Santos, H. Rocha, M. L. Cardoso, and L. Vilarinho, "On the Processing of MS/MS Data: an Application for Metabolic Diseases Screening," in XIV Congresso Nacional de Bioquímica, Vilamoura, Portugal, 2004.
  • G. Moura, M. Pinheiro, V. Afreixo, A. Valente, J. L. Oliveira, and M. A. S. Santos, "Comparative codon context analysis at a genomic scale defines new mRNA decoding rules," in Translational Control Meeting, Cold Spring Harbor, New York, 2004.
  • G. Moura, M. Pinheiro, V. Afreixo, A. Valente, J. L. Oliveira, and M. A. S. Santos, "Genome scale codon context analysis for Saccharomyces cerevisiae and Candida albicans.," in XII Jornadas de Biologia de Leveduras (Leveduras'2004), Aveiro, Portugal, 2004.
  • G. Moura, M. Pinheiro, V. Afreixo, A. Freitas, J. L. Oliveira, and M. A. S. Santos, "Comparative codon context analysis in complete genomes unveils new decoding rules in yeast," in XIV Congresso Nacional de Bioquímica, Vilamoura, Portugal, 2004.
  • L. Carreto, J. Pereira, J. L. Oliveira, A. S. Pereira, V. Afreixo, A. Valente, and M. A. S. Santos, "Implementation of a DNA-microarray platform for yeast expression, genome diversity and evolution and molecular diagnostics research.," in XII Jornadas de Biologia de Leveduras (Leveduras'2004), Aveiro, Portugal, 2004.
  • J. L. Oliveira, M. Pinheiro, G. Dias, G. Moura, V. Afreixo, A. Valente, A. S. Pereira, and M. A. S. Santos, "New software tools for gene analysis," in ESF Programme in Functional Genomics: 1st European Conference (ESFFG'2003), Prague, Czech Republic, 2003.
  • J. L. Oliveira, G. Dias, R. Silva, and M. A. S. Santos, "An open environment for management of proteomics data and projects," in ESF Programme in Functional Genomics: 1st European Conference (ESFFG'2003), Prague, Czech Republic, 2003.
  • I. Oliveira, A. Furtado, J. L. Oliveira, A. S. Pereira, V. Maojo, F. Martin-Sanchez, A. Babic, and M. Santos, "Integration of Genetic and Clinical Information Sources for Health Applications," in ESF Programme in Functional Genomics: 1st European Conference (ESFFG'2003), Prague, Czech Republic, 2003.