Pedro Lopes

Group	Biomedical Informatics and Technologies
Status	Former member
Country	Portugal
Students
Former PhD students
Former masters students
Projects
Past projects	Cloud Thinking, EMIF, EU-ADR, GEN2PHEN, RD-Connect
Events
Proposals
Personal page	http://pedrolopes.net

Publications

Articles in international journals listed in the ISI

• Pedro Lopes, José Luís Oliveira. An automated real-time integration and interoperability framework for bioinformatics. BMC Bioinformatics, vol. 16, no. 328, October 2015 [IF 2015: 2.435 (Q1, 10/56)]
• Pedro Lopes, Luís Bastião Silva, José Luís Oliveira. Challenges and Opportunities for Exploring Patient-Level Data. BioMed Research International, vol. 2015, no. 150435, p. 11 pages, August 2015 [IF 2015: 2.134 (Q3, 82/161)]
• Paulo Gaspar, Pedro Lopes, Jorge Oliveira, Rosário Santos, Raymond Dalgleish, José Luís Oliveira. Variobox: Automatic Detection and Annotation of Human Genetic Variants. Human Mutation, vol. 35, no. 2, p. 202–207, February 2014 [IF 2014: 5.340 (Q1, 25/167)]
• Pedro Lopes, José Luís Oliveira. An innovative portal for rare genetic diseases research: The semantic Diseasecard. Journal of Biomedical Informatics, vol. 46, no. 6, p. 1108-1115, December 2013 [IF 2013: 2.482 (Q1, 17/102)] [IF 2018: 2.950 (Q2, 33/106)]
• Pedro Lopes, Tiago Nunes, David Campos, Laura Ines Furlong, Anna Bauer-Mehren, Ferran Sanz, Maria Carmen Carrascosa, Jordi Mestres, Jan Kors, Bharat Singh, Erik van Mulligen, Johan Van der Lei, Gayo Diallo, Paul Avillach, Ernst Ahlberg, Scott Boyer, Carlos Diaz, José Luís Oliveira. Gathering and Exploring Scientific Knowledge in Pharmacovigilance. PLoS ONE, vol. 8, no. 12, p. e83016, December 2013 [IF 2013: 3.534 (Q1, 8/55)] [IF 2018: 2.776 (Q2, 24/69)]
• José Luís Oliveira, Pedro Lopes, Tiago Nunes, David Campos, 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, J. van der Lei. The EU-ADR Web Platform: delivering advanced pharmacovigilance tools. Pharmacoepidemiology and Drug Safety, vol. 22, no. 5, p. 459-467, May 2013 [IF 2013: 3.172, 3.172, 3.172 (Q2, Q2, 66/256, 66/256)]
• Pedro Lopes, José Luís Oliveira. COEUS: “semantic web in a box” for biomedical applications. Journal of Biomedical Semantics, vol. 3, no. 11, December 2012
• Nuno Rosa, Maria José Correia, Joel Arrais, Pedro Lopes, José Melo, José Luís Oliveira, Marlene Barros. From the salivary proteome to the OralOme: Comprehensive molecular oral biology. Archives of Oral Biology, vol. 57, no. 7, p. 853-864, July 2012 [IF 2012: 1.549, 1.549 (Q2, 31/83)]
• Anna Bauer-Mehren, Erik M. van Mullingen, Paul Avillach, María del Carmen Carrascosa, Ricard Garcia-Serna, Janet Piñero, Bharat Singh, Pedro Lopes, José Luís Oliveira, Gayo Diallo, Ernst Ahlberg Helgee, Scott Boyer, Jordi Mestres, Ferran Sanz, Jan A. Kors, Laura I. Furlong. Automatic Filtering and Substantiation of Drug Safety Signals. PLoS Computational Biology, vol. 8, no. 4, April 2012 [IF 2012: 4.867 (Q1, 11/75)] [IF 2018: 4.428 (Q1, 5/59)]
• Sara C. Novais, Joel Arrais, Pedro Lopes, Tine Vandenbrouck, Wim De Coen, Dick Roelofs, Amadeu M. V. M. Soares, Mónica J. B. Amorim. Enchytraeus albidus Microarray: Enrichment, Design, Annotation and Database (EnchyBASE). PLoS ONE, vol. 7, no. 4, April 2012 [IF 2012: 3.730 (Q1, 7/56)] [IF 2018: 2.776 (Q2, 24/69)]
• Priscilla Grynberg, Thomas Abeel, Pedro Lopes, Geoff Macintyre, Lorena Pantano Rubino. Highlights from the Student Council Symposium 2011 at the International Conference on Intelligent Systems for Molecular Biology and European Conference on Computational Biology. BMC Bioinformatics, vol. 12, no. 11, November 2011 [IF 2011: 2.751 (Q1, 7/47)]
• Pedro Lopes, Raymond Dalgleish, José Luís Oliveira. WAVe: web analysis of the variome. Human Mutation, vol. 32, no. 7, p. 729–734, July 2011 [IF 2011: 5.686 (Q1, 19/158)]

Other articles in journals

• Pedro Sernadela, Pedro Lopes, José Luís Oliveira. A knowledge federation architecture for rare disease patient registries and biobanks. Journal of Information Systems Engineering & Management, vol. 1, no. 2, p. 83-90, March 2016

Chapters in books

• José Melo, Joel Arrais, Edgar Coelho, Pedro Lopes, Nuno Rosa, Maria José Correia, Marlene Barros, José Luís Oliveira. Data Integration Solution for Organ-Specific Studies: An Application for Oral Biology. Biomedical Engineering Systems and Technologies, Joaquim Gabriel, Jan Schier, Sabine Huffel, Emmanuel Conchon, Carlos Correia, Ana Fred, Hugo Gamboa (Ed.), Springer Berlin Heidelberg, vol. 357, p. 401-412, January 2013
• Pedro Lopes, José Luís Oliveira. Collecting and Enriching Human Variome Datasets. Tecnologias NBIC em Salud: El papel protagonista de la Neurociencia, CYTED, p. 9-19, 2012

Articles in conference proceedings

• Pedro Lopes, Luís Bastião Silva, José Luís Oliveira. i2x: an Automated Real-time Integration and Interoperability Platform. 8th IEEE International Conference on Service Oriented Computing & Applications (SOCA 2015), Rome, Italy, October 2015
• Pedro Lopes, Luís Bastião Silva, José Luís Oliveira. Challenges and opportunities for exploring patient-level data: Preliminary results. CISTI 2015 - 10ª Conferencia Ibérica de Sistemas y Tecnologías de Información, Portugal, p. 1-5, June 2015
• Pedro Lopes, José Luís Oliveira. Integration-as-a-service for bioinformatics. CISTI 2015 - 10ª Conferencia Ibérica de Sistemas y Tecnologías de Información, Portugal, p. 1-6, June 2015
• Pedro Lopes, Pedro Sernadela, José Luís Oliveira. Towards a knowledge federation of linked patient registries. 10th Iberian Conference on Information Systems and Technologies (CISTI), 2015, Portugal, June 2015
• Pedro Sernadela, Pedro Lopes, David Campos, Sérgio Matos, José Luís Oliveira. A Semantic Layer for Unifying and Exploring Biomedical Document Curation Results. Bioinformatics and Biomedical Engineering, Proceeedings of the Third International Conference, IWBBIO, Part I, Granada, Spain, vol. Part I, p. 8-17, April 2015
• Pedro Lopes, José Luís Oliveira. An Event-Driven Architecture for Biomedical Data Integration and Interoperability. Bioinformatics and Biomedical Engineering, Proceeedings of the Third International Conference, IWBBIO, Part II, Granada, Spain, vol. Part II, p. 165-174, April 2015
• Pedro Sernadela, Eelke van der Horst, Mark Thompson, Pedro Lopes, Marco Roos, José Luís Oliveira. A Nanopublishing Architecture for Biomedical Data. Advances in Intelligent Systems and Computing, Proc. of the 8th Int. Conf. on Practical Applications of Computational Biology & Bioinformatics (PACBB14), Salamanca, Spain, vol. 294, p. 277-284, June 2014
• Pedro Lopes, Pedro Sernadela, José Luís Oliveira. Exploring Nanopublishing with COEUS. SWAT4LS, Edinburgh, Scotland, December 2013
• Pedro Sernadela, Pedro Lopes, José Luís Oliveira. Exploring nanopublications integration in pharmacovigilance scenarios. EEE 15th International Conference on e-Health Networking, Applications & Services (Healthcom), Lisbon, Portugal, October 2013
• Rafael Mendonça, Pedro Lopes, Hugo Rocha, Jorge Oliveira, Laura Vilarinho, Rosário Santos, José Luís Oliveira. Gathering and managing genotype and phenotype information about rare diseases patients. 5th International Conference on Health Informatics (HEALTHINF 2012), Vilamoura, Portugal, 2012
• Pedro Lopes, Rafael Mendonça, Hugo Rocha, Jorge Oliveira, Laura Vilarinho, Rosário Santos, José Luís Oliveira. A Rare Disease Patient Manager. 6th International Conference on Practical Application of Computational Biology & Bioinformatics, Salamanca, Spain, March 2012
• José Melo, Joel Arrais, Pedro Lopes, Nuno Rosa, Maria José Correia, Marlene Barros, José Luís Oliveira. WEB INFORMATION SYSTEM FOR THE STUDY OF ORAL HEALTH. Healthinf 2012 - International Conference of Health Informatics, Vilamoura - Portugal, February 2012
• Pedro Lopes, José Luís Oliveira. COEUS: A Semantic Web Application Framework. 4th International Semantic Web Applications & Tools for Life Sciences Workshop, London, United Kingdom, p. 66-73, December 2011
• Pedro Lopes, José Luís Oliveira. A semantic web application framework for health systems interoperability. Proceedings of the first international workshop on Managing interoperability and complexity in health systems, p. 87-90, November 2011
• Joel Arrais, Pedro Lopes, José Luís Oliveira. Challenges Storing and Representing Biomedical Data. Information Quality in e-Health: 7th Conference of the Workgroup Human-Computer Interaction and Usability Engineering of the Austrian Computer Society, USAB 2011, Graz, Austria, vol. LNCS 7058, p. 53-62, November 2011
• Pedro Lopes, José Luís Oliveira. Towards knowledge federation in biomedical applications. Proceedings of the 7th International Conference on Semantic Systems, p. 87-94, September 2011
• Pedro Lopes, David Campos, José Luís Oliveira. A tagging system for bioinformatics resources. 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010), Corfu, Greece, November 2010
• Pedro Lopes, José Luís Oliveira. An extensible platform for variome data integration. 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010), Corfu, Greece, November 2010
• Pedro Lopes, José Luís Oliveira. A Holistic Approach for Integrating Genomic Variation Information. Xth Spanish Symposium on Bioinformatics (JBI2010), Malaga, Spain, October 2010
• Joel Arrais, João Pereira, Pedro Lopes, Sérgio Matos, José Luís Oliveira. Improving cross mapping in biomedical databases. 4th International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2010), June 2010
• ...further results

PhD thesis

• Pedro Lopes. Service Composition in Biomedical Applications. PhD Thesis, Universidade de Aveiro, October 2012