Publications

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2018
Kausar, S., and A. O. Falcao, "An automated framework for QSAR model building", Journal of cheminformatics, vol. 10, no. 1: Nature Publishing Group, pp. 1, 2018.
Canato, S., J. D. Santos, A. S. Carvalho, K. Aloria, M. D. Amaral, R. Matthiesen, A. O. Falcao, and C. M. Farinha, "Proteomic interaction profiling reveals KIFC1 as a factor involved in early targeting of F508del-CFTR to degradation", Cellular and Molecular Life Sciences: Springer, pp. 1–15, 2018.
2017
Canato, S., AS. Carvalho, HM. Botelho, K. Aloria, R. Matthiesen, MD. Amaral, A. Falcao, and CM. Farinha, "Modulation of protein traffic networks to rescue F508del-CFTR from the endoplasmic reticulum", FEBS JOURNAL, vol. 284: WILEY 111 RIVER ST, HOBOKEN 07030-5774, NJ USA, pp. 297–298, 2017.
Keller, A., R. C. Gerkin, Y. Guan, A. Dhurandhar, G. Turu, B. Szalai, J. D. Mainland, Y. Ihara, C. Wen Yu, R. Wolfinger, et al., "Predicting human olfactory perception from chemical features of odor molecules", Science: American Association for the Advancement of Science, pp. eaal2014, 2017.
Canato, S., AS. Carvalho, HM. Botelho, K. Aloria, R. Matthiesen, MD. Amaral, A. Falcao, and CM. Farinha, "WS09. 2 Modulation of protein traffic networks to rescue F508del-CFTR from the endoplasmic reticulum", Journal of Cystic Fibrosis, vol. 16: Elsevier, pp. S16, 2017.
2016
Sieberts, S. K., F. Zhu, J. García-García, E. Stahl, A. Pratap, G. Pandey, D. Pappas, D. Aguilar, B. Anton, J. Bonet, et al., "Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis", Nature communications, vol. 7: Nature Publishing Group, pp. 12460, 2016.
Canato, S., J. Santos, A. Carvalho, M. Amaral, R. Matthiesen, A. Falcao, and C. Farinha, "ER quality control protein network in CF to modulate F508del-CFTR rescued", FEBS JOURNAL, vol. 283: WILEY-BLACKWELL 111 RIVER ST, HOBOKEN 07030-5774, NJ USA, pp. 138–138, 2016.
Canato, S., JD. Santos, AS. Carvalho, MD. Amaral, R. Matthiesen, A. Falcao, and CM. Farinha, "IDENTIFICATION OF PROTEIN FACTORS THAT REGULATE CFTR EXIT FROM THE ENDOPLASMIC RETICULUM", PEDIATRIC PULMONOLOGY, vol. 51: WILEY-BLACKWELL 111 RIVER ST, HOBOKEN 07030-5774, NJ USA, pp. 205–205, 2016.
2015
Eduati, F., L. M. Mangravite, T. Wang, H. Tang, C. J. Bare, R. Huang, T. Norman, M. Kellen, M. P. Menden, J. Yang, et al., "Prediction of human population responses to toxic compounds by a collaborative competition", NATURE BIOTECHNOLOGY, vol. 33, pp. 933-U172, SEP, 2015.
Eduati, F., L. M. Mangravite, T. Wang, H. Tang, C. J. Bare, R. Huang, T. Norman, M. Kellen, M. P. Menden, J. Yang, et al., "Prediction of human population responses to toxic compounds by a collaborative competition", NATURE BIOTECHNOLOGY, vol. 33, pp. 933-U172, SEP, 2015.
Clarke, L. A., H. M. Botelho, L. Sousa, A. O. Falcao, and M. D. Amaral, "Transcriptome meta-analysis reveals common differential and global gene expression profiles in cystic fibrosis and other respiratory disorders and identifies CFTR regulators", GENOMICS, vol. 106, pp. 268-277, NOV, 2015.
2014
Marques, AF., C. Rosset, J. Rasinmaki, H. Vacik, S. Gordon, S. Nobre, A. O. Falcao, D. Weber, M. Granitzer, and LO. Eriksson, "Collaborative development of a semantic wiki on forest management decision support", Scandinavian Journal of Forest Research, vol. 29, no. sup1: Taylor & Francis, pp. 30–43, 2014.
Siqueira, JM., TA. Paço, JC. Silvestre, FL. Santos, A. O. Falcao, and LS. Pereira, "Generating fuzzy rules by learning from olive tree transpiration measurement–An algorithm to automatize Granier sap flow data analysis", Computers and Electronics in Agriculture, vol. 101: Elsevier, pp. 1–10, 2014.
Borges, J. G., J. Garcia-Gonzalo, S. Marques, V. A. Valdebenito, M. E. McDill, and A. O. Falcao, "Strategic Management Scheduling", The Management of Industrial Forest Plantations: Springer Netherlands, pp. 171–238, 2014.
Teixeira, A. L., and A. O. Falcao, "Structural similarity based kriging for quantitative structure activity and property relationship modeling", Journal of chemical information and modeling, vol. 54, no. 7: American Chemical Society, pp. 1833–1849, 2014.
Duarte, C., L. Carriço, D. Costa, D. Costa, A. O. Falcao, and L. Tavares, "Welcoming gesture recognition into autism therapy", CHI'14 Extended Abstracts on Human Factors in Computing Systems: ACM, pp. 1267–1272, 2014.
2013
Teixeira, A. L., J. P. Leal, and A. O. Falcao, "Automated Identification and Classification of Stereochemistry: Chirality and Double Bond Stereoisomerism", arXiv preprint arXiv:1303.1724, 2013.
Leal, J. P., A. O. Falcao, and A. L. Teixeira, Automated Identification and Classification of Stereochemistry: Chirality and Double Bond Stereoisomerism, , 2013.
Teixeira, A. L., and A. O. Falcao, "Noncontiguous atom matching structural similarity function", Journal of chemical information and modeling, vol. 53, no. 10: American Chemical Society, pp. 2511–2524, 2013.
Teixeira, A. L., J. P. Leal, and A. O. Falcao, "Random forests for feature selection in QSPR Models-an application for predicting standard enthalpy of formation of hydrocarbons.", J. Cheminformatics, vol. 5, pp. 9, 2013.
Teixeira, A. L., R. C. Santos, J. P. Leal, J. A. Martinho Simões, and A. O. Falcao, "ThermInfo: Collecting, Retrieving, and Estimating Reliable Thermochemical Data", arXiv preprint arXiv:1302.0710, 2013.
2012
Martins, I. Filipa, A. L. Teixeira, L. Pinheiro, and A. O. Falcao, "A Bayesian approach to in silico blood-brain barrier penetration modeling", Journal of chemical information and modeling, vol. 52, no. 6: American Chemical Society, pp. 1686–1697, 2012.
Faria, D., A. Schlicker, C. Pesquita, H. Bastos, A. E. N. Ferreira, M. Albrecht, and A. O. Falcao, "Mining GO annotations for improving annotation consistency", PloS one, vol. 7, no. 7: Public Library of Science, pp. e40519, 2012.
2011
Madureira, L., L. C. Nunes, J. G. Borges, and A. O. Falcao, "Assessing forest management strategies using a contingent valuation approach and advanced visualisation techniques: A Portuguese case study", Journal of Forest Economics, vol. 17, no. 4: Urban & Fischer, pp. 399–414, 2011.
Cieszewski, C. J., P. Bettinger, and A. O. Falcao, "The Conclusion of Perspectives on New Developments of Decision Support Systems for Sustainable Forest Management", Mathematical and Computational Forestry & Natural-Resource Sciences (MCFNS), vol. 3, no. 2, pp. Pages–73, 2011.
Zhang, H., M. Constantino, and A. O. Falcao, "Modeling forest core area with integer programming", Annals of Operations Research, vol. 190, no. 1: Springer US, pp. 41–55, 2011.
Bettinger, P., C. J. Cieszewski, and A. O. Falcao, "Perspectives on New Developments of Decision Support Systems for Sustainable Forest Management", Mathematical and Computational Forestry & Natural-Resource Sciences (MCFNS), vol. 3, no. 1, pp. Pages–15, 2011.
2010
Pesquita, C., D. Faria, A. O. Falcao, P. Lord, F. Couto, and , "Semantic Similarities in Biomedical Ontologies", IMIA Yearbook, vol. 5, pp. 84–84, 2010.
Langlois, T., T. Chambel, E. Oliveira, P. Carvalho, G. Marques, and A. O. Falcao, "VIRUS: video information retrieval using subtitles", Proceedings of the 14th International Academic MindTrek Conference: Envisioning Future Media Environments: ACM, pp. 197–200, 2010.
2009
Faria, D., A. E. N. Ferreira, and A. O. Falcao, "Enzyme classification with peptide programs: a comparative study", BMC bioinformatics, vol. 10, no. 1: BioMed Central Ltd, pp. 231, 2009.
Faria, D., C. Pesquita, F. Couto, and A. O. Falcao, "GOclasses: molecular function as viewed by proteins", The 12th Annual Bio-Ontologies, 2009.
Pesquita, C., D. Faria, A. O. Falcao, P. Lord, and F. Couto, "Semantic similarity in biomedical ontologies", PLoS computational biology, vol. 5, no. 7: Public Library of Science, pp. e1000443, 2009.
2008
Loff, J. F., M. Palahí, A. O. Falcao, H. Martins, and J. G. Borges, "Addressing sustainability concerns in Mediterranean forest ecosystem management", MEDFOREX Program, Forest Technology Centre of Catalonia, pp. 1–9, 2008.
Bastos, H., C. Pesquita, D. Faria, and A. O. Falcao, "BOLOS: BLAST & Ontology Linked-hOmologue Stars", Proceedings of the 2008 ACM symposium on Applied computing: ACM, pp. 1278–1281, 2008.
Pesquita, C., D. Faria, H. Bastos, A. Ferreira, A. O. Falcao, and F. Couto, "Metrics for GO based protein semantic similarity: a systematic evaluation", BMC bioinformatics, vol. 9, no. Suppl 5: BioMed Central Ltd, pp. S4, 2008.
Falcao, A. O., D. Faria, and A. Ferreira, "Peptide programs: applying fragment programs to protein classification", Proceedings of the 2nd international workshop on Data and text mining in bioinformatics: ACM, pp. 37–44, 2008.
Falcao, A. O., "Visualization in the Design of Forested Landscapes", Designing Green Landscapes: Springer Netherlands, pp. 245–263, 2008.
2007
Pesquita, C., D. Faria, H. Bastos, A. O. Falcao, and F. Couto, "Evaluating go-based semantic similarity measures", Proc. 10th Annual Bio-Ontologies Meeting, vol. 37, no. 40, pp. 38, 2007.
Pesquita, C., D. Faria, H. Bastos, A. O. Falcao, and F. Couto, "Evaluating gobased semantic similarity measures", Proc. 10th Annual Bio-Ontologies Meeting, vol. 2007, pp. 37–40, 2007.
Pesquita, C., D. Faria, H. Bastos, A. O. Falcao, and F. Couto, "Evaluating GO-based Semantic Similarity Measures. ISMB/ECCB 2007 SIG Meeting Program Materials", International Society for Computational Biology, 2007.
Faria, D., C. Pesquita, F. Couto, and A. O. Falcao, Proteinon: A web tool for protein semantic similarity, : Department of Informatics, University of Lisbon, 2007.
Martins, F., A. O. Falcao, and F. Couto, Semantic Similarity Match for Data Quality, : Department of Informatics, University of Lisbon, 2007.
Bastos, H., D. Faria, C. Pesquita, and A. O. Falcao, "Using GO terms to evaluate protein clustering", BioOntologies SIG at ISMB/ECCB-15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), 2007.
2006
Falcao, A. O., Addressing the computational complexity of harvest scheduling problems for short rotation species: Heuristics or Integer Programming?, : International Conference of Interdisciplinary Mathematical & Statistical Techniques, 2006.
Falcao, A. O., T. Langlois, and A. Wichert, "Flexible kernels for RBF networks", Neurocomputing, vol. 69, no. 16: Elsevier, pp. 2356–2359, 2006.
Falcao, A. O., M. Próspero Santos, and J. G. Borges, "A real-time visualization tool for forest ecosystem management decision support", Computers and electronics in agriculture, vol. 53, no. 1: Elsevier, pp. 3–12, 2006.
Teles, J., J. Cavaleiro, P. Weinman, A. O. Falcao, P. Fernandes, and JE. Fonseca, RheugulationDB: building an integrated view on Rheumatoid Artritis, : European Congress of Rheumatology, 2006.
Teles, J., J. Cavaleiro, P. Weinman, A. O. Falcao, P. Fernandes, and JE. Fonseca, RheugulationDB: Construindo uma imagem integrada para a artrite reumatóide, : XIII Congresso Português de Reumatologia, 2006.
2005
Falcao, A. O., and J. G. Borges, "Designing decision support tools for Mediterranean forest ecosystems management: a case study in Portugal", Annals of Forest Science, vol. 62, no. 7: EDP Sciences, pp. 751–760, 2005.
Borges, J. Guilherme, P. Soares, M. Tome, J. Tomé, J. Santos Pereira, S. Barreiro, A. O. Falcao, C. Araújo, J. Pedro Pina, L. Lemos, et al., Modelação da sustentabilidade da produção de madeira e do armazenamento de carbono de eucaliptais ao n{ível da unidade de gestão, : SPCF, 2005.
Falcao, A. O., "Residue fragment programs for enzyme classification", Proceedings of the workshop Bioinformatics: Knowledge Discovery in Biology, pp. 24–28, 2005.
2004
Falcao, A. O., "{Integração de um visualizador interactivo de paisagens florestais num sistema de apoio á decisão em gestão de recursos naturais–aplicação á Serra da Lousã", Silva Lusitana. Nº Especial, pp. 89–102, 2004.
Falcao, A. O., and M. Próspero Santos, Representação de Paisagens Florestais Adequada á Navegação para Áreas de Grande Dimensão, , 2004.
2003
Falcao, A. O., and J. Guilherme Borges, "Comparison of Heuristics for Spatially Constrained Natural Resource Management Problems", Systems Analysis in Forest Resources: Springer Netherlands, pp. 269–277, 2003.
Borges, J. G., A. O. Falcao, C. Miragaia, P. Marques, and M. Marques, "A decision support system for forest ecosystem management in Portugal", Systems Analysis in Forest Resources: Springer Netherlands, pp. 155–163, 2003.
Falcao, A. O., and J. Guilherme Borges, "MANAGEMENT PROBLEMS", Managing Forest Ecosystems, pp. 269, 2003.
2002
Falcao, A. O., and J. Borges, "Combining random and systematic search heuristic procedures for solving spatially constrained forest management scheduling models", Forest Science, vol. 48, no. 3: Society of American Foresters, pp. 608–621, 2002.
Borges, J. G., H. M. Hoganson, and A. O. Falcao, "Heuristics in multi-objective forest management", Multi-objective forest planning: Springer Netherlands, pp. 119–151, 2002.
Falcao, A. O., {Simulação e Geração de Alternativas de Gestão para o Per{ímetro Florestal do Cantão das Hortas-Serra da Lousã, , 2002.
Falcao, A. O., "Simulação e projecção de alternativas de gestão para o montado de sobro", Documento Técnico, vol. 4, no. 02, 2002.
2001
Falcao, A. O., and J. G. Borges, "Designing an evolution program for solving integer forest management scheduling models: an application in Portugal", Forest science, vol. 47, no. 2: Society of American Foresters, pp. 158–168, 2001.
Falcao, A. O., Implementação de métodos heur{ísticos para modelação da gestão em ecossistemas florestais–Integração num Sistema de Apoio á Decisão, : Ph. D. thesis, Instituto Superior de Agronomia, Lisboa, 2001.
Tome, M., J. G. Borges, and A. O. Falcao, "The use of management-oriented growth and yield models to assess and model forest wood sustainability. A case study for eucalyptus plantations in Portugal", Models for Sustainable Management of Temperate Plantation Forests, European Forest Institute, Joensuu, pp. 81–94, 2001.
1999
Borges, JG., and A. O. Falcao, "[Dynamic programming and the management of forest plantations with a regular structure and pure composition: its application to the Leiria National Woodlands]", Revista Florestal (Portugal), 1999.
Borges, JG., JA. Gomes, A. O. Falcao, and HM. Hoganson, "[Heuristics based on dynamic programming and adjacency restrictions in forest management: an example in a cork-oak grove and its application in a eucalyptus plantation]", Revista Florestal (Portugal), 1999.
Falcao, A. O., and JG. Borges, "[Linear programming and strategic forest resource management: its application to the Leiria National Woodlands]", Revista Florestal (Portugal), 1999.
Borges, JG., and A. O. Falcao, "Programação dinâmica e gestão de povoamentos com estrutura regular e composição pura. Aplicação á Mata Nacional de Leiria", Revista Florestal, vol. 12, no. 1/2, pp. 69–82, 1999.
Falcao, A. O., and JG. Borges, SAGfLOR 2.0-Simulador de Alternativas de Gestão. Manual de Utilização, : Grupo de Economia e Planeamento em Recursos Florestais, Documento nº5, DEF, Lisboa, 1999.
Borges, JG., and A. O. Falcao, "SagFlor, a simulator of management alternatives in forest ecosystems", Revista Florestal (Portugal), 1999.
Falcao, A. O., JG. Borges, and M. Tomé, "SAGfLOR–An automated forest management prescription writer", Modelling the Growth of Tree Plantations and Agroforestry Systems in South and East Africa, University of Joensuu, Faculty of Forestry Research Notes, vol. 97, pp. 211–218, 1999.
1998
Miragaia, C., JG. Borges, A. O. Falcao, and M. Tome, "InFlor, a management information system in forest resources", Modelling the growth of tree plantations and agroforestry systems in South and East Africa, University of Joensuu, Faculty of Forestry Research Notes, vol. 80, pp. 131–142, 1998.
1997
Falcao, A. O., "DUNAS–A growth model for the National Forest of Leiria", Empirical and process-based models for forest tree and stand growth simulation, pp. 20–26, 1997.
Tomé, M., A. O. Falcao, and A. Amaro, "Globulus V1. 0.0: A regionalised growth model for Eucalypt plantations in Portugal", Proceedings of the IUFRO Conference: Modelling growth of fast-grown tree species, pp. 138–145, 1997.
1995
Tomé, M., A. O. Falcao, A. Carvalho, and A. Amaro, "A global growth model for eucalypt plantations in Portugal", Lesnictvi-UZPI (Czech Republic), 1995.