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I am the director of the Institute of Electronics and Informatics Engineering of Aveiro (IEETA), scientific director of BMD Software, and a full professor at the Department of Electronics, Telecommunications, and Informatics (DETI), at the University of Aveiro. I have served as IEETA vice-director (2010-2018), held the position of DETI director (2001-2003) and vice director for four years, and served as a member of the Scientific Council of the University of Aveiro (2013-2017). I have been a member of the scientific committees for four scientific journals and 130 international conferences. Additionally, I have contributed as a reviewer for more than 40 journals, providing critical evaluation and feedback on submitted research manuscripts. I have also participated as an evaluator for scientific funding programs across multiple organizations. These include evaluations for the QREN, ANI and the Fundação para a Ciência e a Tecnologia (FCT) in Portugal, over 12 years. Moreover, I was a member of the evaluation panels of the UEFISCDI in Romania, the Institut National de la Santé et de la Recherche Médicale (INSERM) in France, the Netherlands Organisation for Scientific Research (NWO), the Austrian Science Fund in Austria (FWF), The Israel Science Foundation (ISF) and the Brussels Institute for Research and Innovation (Innoviris). Outside academia, I became the Scientific Director of the Bioinformatics Unit at BIOCANT (2006-2009), a biotechnology research and innovation centre located in Cantanhede, Portugal. Committed to an entrepreneurial activity, I contributed to the foundation of two spin-offs. The first, BMD Software, was created in 2011 and is now a well-established SME in the medical informatics field. My research centers on investigating computational methods and data engineering techniques to uncover insights within biomedical datasets, essential for advancing personalized medicine and enhancing our understanding of diseases. Throughout my career, I have accumulated extensive experience in supervising academic work. I have supervised 20 doctoral students, and am currently the mentor of four students. Out of these 12 students have been awarded an FCT doctoral scholarship. Of the students who have completed their doctoral studies, 10 are currently faculty members in higher education institutions, and 8 hold prominent positions in the industry (two of whom have founded companies, of which they are CEOs). The scientific supervision has also extended to master's degrees (62), and undergraduate final projects (41). Additionally, I have served as an internship supervisor for 11 foreign doctoral students (from Spain, Colombia, and Croatia).
Identification

Personal identification

Full name
José Luis Oliveira

Citation names

  • Oliveira, José Luis

Author identifiers

Ciência ID
F716-5261-2F01
ORCID iD
0000-0002-6672-6176
Researcher Id
A-2223-2012
Scopus Author Id
57193360895

Knowledge fields

  • Exact Sciences - Computer and Information Sciences
  • Engineering and Technology - Electrotechnical Engineering, Electronics and Informatics

Languages

Language Speaking Reading Writing Listening Peer-review
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
Portuguese Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
French Intermediate (B1) Intermediate (B1) Intermediate (B1) Intermediate (B1)
Education
Degree Classification
2017
Concluded
Engenharia Informática (Título de Agregado)
Universidade de Aveiro, Portugal
"Biomedical informatics research – past and future trends" (THESIS/DISSERTATION)
Aprovado
1991/09/01 - 1996/01/18
Concluded
Ciências de Engenharia - Engenharia Electrotécnica (Doutoramento)
Major in Redes de comunicação
Universidade de Aveiro, Portugal
1986
Concluded
Engenharia Electrotécnica (Licenciatura)
Universidade de Aveiro, Portugal
Affiliation

Teaching in Higher Education

Category
Host institution
Employer
2020/06/01 - Current Full Professor (University Teacher) Universidade de Aveiro, Portugal
2013 - 2019 Associate Professor (University Teacher) Universidade de Aveiro, Portugal

Positions / Appointments

Category
Host institution
Employer
2017 - 2018 Conselho geral ou orgão correspondente Universidade de Aveiro, Portugal
2013 - 2016 Conselho geral ou orgão correspondente Universidade de Aveiro, Portugal
Projects

Contract

Designation Funders
2021/11/01 - 2026/10/31 European platform for neurodegenerative disorders
101034344
Principal investigator
European Commission
Ongoing
2021/01 - 2025/12 Laboratório Associado de Sistemas Inteligentes
168241UID
Fundação para a Ciência e a Tecnologia
Ongoing
2020/01/01 - 2023/12/31 IMAGE-IN – Imaging infections: integrated, multiscale visualization of infections and host response
861122
861122
Principal investigator
Horizon 2020

European Commission
Ongoing
2018/11/01 - 2023/10/31 EHDEN – European Health Data & Evidence Network
Principal investigator
Universidade de Aveiro, Portugal
Horizon 2020

European Commission
Ongoing
2018/07/01 - 2022/06/30 Identification and quantification of protein biosynthesis errors at the proteome scale.
PTDC/BIA-MIB/31238/2017
Universidade de Aveiro, Portugal

Universidade de Aveiro Instituto de Biomedicina, Portugal
Fundação para a Ciência e a Tecnologia
Ongoing
2020/11 - 2021/10 SIARC - Solutions integradas para a automação do rastreio de alto débito da COVID-19
67304720204769749ANI
Co-Principal Investigator (Co-PI)
Agência Nacional de Inovação SA
Concluded
2018/09/01 - 2021/08/31 D4 – Deep Drug Discovery and Deployment
029266
Researcher
Universidade de Aveiro, Portugal
Associação para a Inovação e Desenvolvimento da FCT
Ongoing
2017/05/01 - 2020/12/31 SOCA – Smart Open Campus
CENTRO-01-0145-FEDER-000010
Researcher
Universidade de Aveiro, Portugal
Ongoing
2016/01/01 - 2020/12/31 NETDIAMOND – NEw Targets in DIAstolic heart failure: from coMOrbidities to persoNalizeD medicine
POCI-01-0145-FEDER-016385
Researcher
Universidade de Aveiro, Portugal
Ongoing
2016/12/01 - 2020/11/30 Novos alvos na insuficiência cardíaca diastólica: das comorbilidades à medicina personalizada
SAICTPAC/0047/2015
Instituto Nacional de Engenharia Biomédica, Portugal

Universidade de Aveiro, Portugal

Universidade do Porto Instituto de Biologia Molecular e Celular, Portugal

Instituto de Biologia Experimental e Tecnológica, Portugal

Universidade NOVA de Lisboa NOVA Medical School, Portugal

Universidade do Porto Faculdade de Medicina, Portugal

Universidade do Porto Instituto de Patologia e Imunologia Molecular, Portugal
Fundação para a Ciência e a Tecnologia
Ongoing
2017/06/25 - 2020/06/26 MammoAssist .: Detection of microcalcifications in mammography
POCI-01-0247-FEDER-033248
Principal investigator
Concluded
2016/07/01 - 2019/12/31 MIRMIR – Multimodal Information Retrieval in Medical Imaging Repositories
PTDC/EEI-ESS/6815/2014
Researcher
Universidade de Aveiro, Portugal
Associação para a Inovação e Desenvolvimento da FCT
Concluded
2013/01/01 - 2019/06/30 EMIF – European Medical Information Framework
115372
Principal investigator
Concluded
2015/01/01 - 2018/12/31 EUROLEISH-NET – Control of leishmaniasis, from bench to bedside and community
642609
Principal investigator
Horizon 2020
Concluded
2012/01/01 - 2018/12/31 RD-CONNECT – An integrated platform connecting registries, biobanks and clinical bioinformatics for rare disease research
305444
Principal investigator
Universidade de Aveiro, Portugal
European Commission
Concluded
2015/05/01 - 2018/04/30 Creating medically-driven integrative bioinformatics applications focused on oncology, CNS disorders and their comorbidities (MedBioinformatics)
634143
Principal investigator
European Commission
Concluded
2013/11/01 - 2017/10/31 Advanced spectroscopic hemogram for personalized care against live threatening infections using an integrated chip-assisted bio-photonic system
611682
Principal investigator
European Commission
2013/01/01 - 2015/12/31 Cloud Thinking
CENTRO-07-ST24-FEDER-002031
Principal investigator
Concluded
2013/01/01 - 2015/12/31 New Strategies Applied to Neuropathological Disorders
CENTRO-07-ST24-FEDER-002034
Researcher
Concluded
2011/01/01 - 2013/12/31 Strategic Project - UI 127 - 2011-2012
PEst-C/EEI/UI0127/2011
Universidade de Aveiro, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2010/01/01 - 2013/12/31 DECODING – Large scale approaches to unravel genome decoding rules
PTDC/BIA- GEN/110383/2009
PTDC/BIA- GEN/110383/2009
Researcher
Universidade de Aveiro, Portugal
Associação para a Inovação e Desenvolvimento da FCT
2010/05/01 - 2013/10/31 Query term expansion methodologies for improved biomedical literature retrieval
Researcher
Associação para a Inovação e Desenvolvimento da FCT
2010/04/15 - 2013/10/14 Mudança Climática Global e Poluição: uma combinação para o desastre?
PTDC/AAC-CLI/107916/2008
107916PRJ
Universidade de Aveiro, Portugal

Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal

Centro de Ciências do Mar, Portugal

Instituto do Mar, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2008/01/01 - 2013/06/30 GEN2PHEN – Genotype-To-Phenotype Databases: A Holistic Solution
200754
Principal investigator
Universidade de Aveiro, Portugal
European Commission
Concluded
2010/05/01 - 2013/05 DICOM Services Over Peer-To-Peer Networks
Researcher
Universidade de Aveiro
2008/05/02 - 2012/01/31 Developing new tools for studying mRNA mistranslation
PTDC/BIA-BCM/72251/2006
Universidade de Aveiro, Portugal

Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2008/02/01 - 2012/01/31 Exploring and understanding adverse drug reactions by integrative mining of clinical records and biomedical knowledge
215847
Principal investigator
European Commission
Concluded
2007/01/01 - 2011/12/31 CMU-UA – CS UAveiro Activities Plan under the Computer Science sub area of the Information Processing and Networking focus area of the CMU-Portugal Program
CMU-PT/0007/2007
CMU-PT/0007/2007
Principal investigator
Universidade de Aveiro, Portugal
Associação para a Inovação e Desenvolvimento da FCT
Concluded
2009/01 - 2011/12 Implementation of a Nacional Facility for DNA Microarrays: Phase II
PTDC/BIA-BCM/64745/2006
Researcher
Universidade de Aveiro, Portugal

Universidade de Aveiro Centro de Estudos do Ambiente e do Mar, Portugal

Universidade do Porto Faculdade de Medicina, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2007/06/01 - 2008/11/30 New statistical methodologies for analysis DNA microarrays data
PTDC/MAT/72974/2006
Universidade de Aveiro, Portugal

Universidade de Aveiro Centro de Investigação e Desenvolvimento em Matemática e Aplicações, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2005/01/01 - 2008/03/31 Medição, Modelação e Análise Estatística de Tráfego Internet
POSC/EIA/60061/2004
60061PRJ
Universidade de Lisboa Instituto Superior Técnico, Portugal

Instituto de Telecomunicações Lisboa, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2004/01/01 - 2007/06/30 Structuring European Biomedical Informatics to Support Individualised Healthcare
InfoBioMed
Co-Principal Investigator (Co-PI)
Concluded
Outputs

Publications

Book
  1. Bastião Silva, L.A.; Días, C.; Van Der Lei, J.; Oliveira, J.L.. Architecture to Summarize Patient-Level Data Across Borders and Countries. 2015.
    10.3233/978-1-61499-564-7-687
  2. Sernadela, P.; Lopes, P.; Campos, D.; Matos, S.; Oliveira, J.L.. A semantic layer for unifying and exploring biomedical document curation results. 2015.
  3. Lopes, P.; Oliveira, J.L.. An event-driven architecture for biomedical data integration and interoperability. 2015.
  4. Brás, S.; Silva, A.; Ribeiro, J.; Oliveira, J.L.. New insights in echocardiography based left-ventricle dynamics assessment. 2015.
  5. Castro, L.; Oliveira, J.L.; Silva, R.M.. Mutation analysis in PARK2 gene uncovers patterns of associated genetic variants. 2014.
    10.1007/978-3-319-07581-5_18
  6. Nunes, T.; Matos, S.; Oliveira, J.L.. Extracting sentences describing biomolecular events from the biomedical literature. 2014.
    10.1007/978-3-319-07593-8_48
  7. Sernadela, P.; van der Horst, E.; Thompson, M.; Lopes, P.; Roos, M.; Oliveira, J.L.. A nanopublishing architecture for biomedical data. 2014.
    10.1007/978-3-319-07581-5_33
  8. Bastiaõ Silva, L.A.; Ribeiro, L.S.; Santos, M.; Costa, C.; Oliveira, J.L.. Screening Radiation Exposure for Quality Assurance. 2014.
    10.3233/978-1-61499-432-9-622
  9. Godinho, T.M.; Bastiao Silva, L.A.; Costa, C.; Oliveira, J.L.. Multi-provider Architecture for Cloud Outsourcing of Medical Imaging Repositories. 2014.
    10.3233/978-1-61499-432-9-146
  10. Melo, J.; Arrais, J.P.; Coelho, E.; Lopes, P.; Rosa, N.; Correia, M.J.; Barros, M.; Oliveira, J.L.. Data Integration Solution for Organ-Specific Studies: An Application for Oral Biology. 2013.
    10.1007/978-3-642-38256-7_27
  11. Coelho, Edgar D.; Arrais, Joel P.; Matos, Sergio; Rosa, Nuno; Correia, Maria Jose; Barros, Marlene; Oliveira, Jose Luis. Computational Approach to Predict Inter-Species Oral Protein-Protein Interactions. 2013.
  12. Lopes, R.P.; Oliveira, J.L.. Multi-management schemes for MAF platforms. 2002.
    10.1007/3-540-36086-7_2
  13. Aguiar, R.L.; Oliveira, J.L.. New services on an advanced internet. 1999.
Book chapter
  1. Miguel Pinheiro; Jorge Miguel Silva; José Luis Oliveira. "Optimizing Variant Calling for Human Genome Analysis: A Comprehensive Pipeline Approach". 2023.
    10.1007/978-3-031-34960-7_6
  2. Richard Adolph Aires Jonker; Roshan Poudel; Olga Fajarda; José Luís Oliveira; Rui Pedro Lopes; Sérgio Matos. "DyPrune: Dynamic Pruning Rates for Neural Networks". 2023.
    10.1007/978-3-031-49008-8_12
  3. Alina Yanchuk; Alina Trifan; Olga Fajarda; José Luís Oliveira. "Automatic Classification of Stigmatizing Articles of Mental Illness: The Case of Portuguese Online Newspapers". 2022.
    10.1007/978-3-031-15743-1_31
  4. João Rafael Almeida; João Figueira Silva; Alejandro Pazos Sierra; Sergio Matos; José Luís Oliveira. "Leveraging Clinical Notes for Enhancing Decision-Making Systems with Relevant Patient Information". 2021.
    10.1007/978-3-030-72379-8_26
  5. Alina Trifan; Rui Antunes; Sérgio Matos; Jose Luís Oliveira. "Understanding Depression from Psycholinguistic Patterns in Social Media Texts". 402-409. Springer International Publishing, 2020.
    10.1007/978-3-030-45442-5_50
  6. João Rafael Almeida; Olga Fajarda; José Luís Oliveira. "File Forgery Detection Using a Weighted Rule-Based System". 85-96. Springer International Publishing, 2020.
    10.1007/978-3-030-58219-7_8
  7. Alina Trifan; José Luís Oliveira. "Towards a More Reproducible Biomedical Research Environment: Endorsement and Adoption of the FAIR Principles". 2020.
    10.1007/978-3-030-46970-2_22
  8. Olga Fajarda; Alina Trifan; Michel Van Speybroeck; Peter R. Rijnbeek; José Luís Oliveira. "Exploring the Value of Electronic Health Records from Multiple Datasets". 2019.
    10.1007/978-3-030-29196-9_19
  9. Matos, Sergio; Arrais, Joel P.; Oliveira, Jose Luis. "Expanding Gene-Based PubMed Queries". edited by Rocha, M. P. Riverola F. F. Shatkay H. Corchado J. M., 61-68. 2010.
    10.1007/978-3-642-13214-8_8
  10. Lousado, Jose Paulo; Oliveira, Jose Luis; Moura, Gabriela; Santos, Manuel A. S.. "An Application for Studying Tandem Repeats in Orthologous Genes". edited by Rocha, M. P. Riverola F. F. Shatkay H. Corchado J. M., 109-115. 2010.
    10.1007/978-3-642-13214-8_14
  11. Arrais, Joel; Pereira, Joao E.; Lopes, Pedro; Matos, Sergio; Oliveira, Jose Luis. "Improving Cross Mapping in Biomedical Databases". edited by Rocha, M. P. Riverola F. F. Shatkay H. Corchado J. M., 69-76. 2010.
    10.1007/978-3-642-13214-8_9
  12. Costa, C.; Oliveira, J. L.; Silva, A.; Gama, V.. "An integrated access interface to multimedia EPR". edited by Lemke, H. U. Inamura K. Doi K. Vannier M. W. Farman A. G. Reiber J. H. C., 880-886. 2003.
    10.1016/s0531-5131(03)00258-9
  13. Lopes, R. P.; Oliveira, J. L.; Lopes, R.P.; Oliveira, J.L.. "Delegation of expressions for distributed SNMP information processing". edited by Goldszmidt, G. Schonwalder J., 395-408. 2003.
    10.1109/inm.2003.1194194
Conference paper
  1. CRUZ, DINIS; Almeida, João Rafael; Silva, Jorge Miguel; Oliveira, José Luis. Corresponding author: CRUZ, DINIS. "SecureFASTA: Ensuring privacy and trust when sharing genomic data". Paper presented in IEEE 36th International Symposium on Computer Based Medical Systems (CBMS) 2023, L'Aquila, 2023.
    Submitted
  2. CRUZ, DINIS; Almeida, João Rafael ; Silva, Jorge Miguel; Oliveira, José Luis. Corresponding author: Almeida, João Rafael. "A Reliable and Secure Method for Sharing Genomic Data". Paper presented in Medical Informatics Europe 2023, Gothenburg, 2023.
    Published
  3. Torres, Luis H. M.; Nelson R. C. Monteiro; Oliveira, José Luis; Arrais, Joel; Ribeiro, Bernardete. "Exploring a Siamese Neural Network Architecture for One-Shot Drug Discovery". Paper presented in 2020 IEEE 20th International Conference on Bioinformatics and Bioengineering (BIBE), Cincinnati, OH, USA, 2020.
    Published • 10.1109/bibe50027.2020.00035
  4. Sernadela, P.; Oliveira, J.L.. "Automated nanopublications generation from biomedical literature". 2017.
    10.1109/ENBENG.2017.7889462
  5. Godinho, T.M.; Costa, C.; Oliveira, J.L.. "Generating Big Data repositories for research in medical imaging". 2016.
    10.1109/CISTI.2016.7521382
  6. Coelho, E.D.; Arrais, J.P.; Oliveira, J.L.. "Ensemble-based methodology for the prediction of drug-target interactions". 2016.
    10.1109/CBMS.2016.67
  7. Monteiro, E.; Costa, C.; Oliveira, J.L.; Campos, D.; Silva, L.B.. "Caching and prefetching images in a web-based DICOM viewer". 2016.
    10.1109/CBMS.2016.68
  8. Lopes, P.; Bastião, L.; Oliveira, J.L.. "I2x: An Automated Real-Time Integration and Interoperability Platform (Short Paper)". 2016.
    10.1109/SOCA.2015.16
  9. Correia, F.B.; Arrais, J.P.; Oliveira, J.L.. "Prediction of cancer using network topological features". 2016.
  10. Monteiro, E.; Sernadela, P.; Matos, S.; Costa, C.; Oliveira, J.L.. "Semantic knowledge base construction from radiology reports". 2016.
  11. Santos, A.; Matos, S.; Campos, D.; Oliveira, J.L.. "A curation pipeline and web-services for PDF documents". 2016.
  12. Monteiro, E.; Costa, C.; Oliveira, J.L.. "A machine learning methodology for medical imaging anonymization". 2015.
    10.1109/EMBC.2015.7318626
  13. Monteiro, E.; Valente, F.; Costa, C.; Oliveira, J.L.. "A Recommender System for Medical Imaging Diagnostic". 2015.
    10.3233/978-1-61499-512-8-461
  14. Sernadela, P.; Matos, S.; Oliveira, J.L.. "Ann2RDF: Moving annotations to semantic web". 2015.
    10.1145/2837185.2837253
  15. Lopes, P.; Bastião, L.; Oliveira, J.L.. "Challenges and opportunities for exploring patient-level data: Preliminary results". 2015.
    10.1109/CISTI.2015.7170531
  16. Lopes, P.; Oliveira, J.L.. "Integration-as-a-service for bioinformatics". 2015.
    10.1109/CISTI.2015.7170530
  17. Lopes, P.; Sernadela, P.; Oliveira, J.L.. "Towards a knowledge federation of linked patient registries". 2015.
    10.1109/CISTI.2015.7170546
  18. Coelho, E.D.; Arrais, J.P.; Oliveira, J.L.. "Uncovering microbial duality within human microbiomes: A novel algorithm for the analysis of host-pathogen interactions". 2015.
    10.1109/EMBC.2015.7319086
  19. Silva, L.A.B.; Ribeiro, L.; Costa, C.; Oliveira, J.L.; Santos, M.. "Normalizing medical imaging archives for dose quality assurance and productivity auditing". 2014.
    10.1109/MeMeA.2014.6860112
  20. Silva, L.A.B.; Costa, C.; Oliveira, J.L.. "Semantic search over DICOM Repositories". 2014.
    10.1109/ICHI.2014.41
  21. Silva, L.A.B.; Beroud, L.; Costa, C.; Oliveira, J.L.. "Medical imaging archiving: A comparison between several NoSQL solutions". 2014.
    10.1109/BHI.2014.6864305
  22. Barbosa, F.C.; Arrais, J.P.; Oliveira, J.L.. "Weighted gene co-expression network analysis applied to head and neck squamous cell carcinoma data". 2014.
    10.1007/978-3-319-03005-0_76
  23. Rodrigues, R.P.; Arrais, J.P.; Coelho, E.D.; Oliveira, J.L.. "A cytoscape-based web tool for representing protein networks". 2014.
    10.1007/978-3-319-03005-0_79
  24. Kaliyaperumal, R.; T'Hoen, P.A.C.; Tatum, Z.; Thompson, M.; Van Der Horst, E.; Schultes, E.; Fokkema, I.F.A.C.; et al. "Genome annotation using nanopublications: An approach to interoperability of genetic data". 2014.
  25. Silva, L.A.B.; Costa, C.; Oliveira, J.L.. "An agile framework to support distributed medical imaging scenarios". 2013.
    10.1109/ICHI.2013.48
  26. Melicio Monteiro, E.J.; Costa, C.; Oliveira, J.L.. "A DICOM viewer based on web technology". 2013.
    10.1109/HealthCom.2013.6720660
  27. Ribeiro, L.S.; Rodrigues, R.P.; Costa, C.; Oliveira, J.L.. "Enabling outsourcing XDS for imaging on the public cloud". 2013.
    10.3233/978-1-61499-289-9-33
  28. Sernadela, P.; Lopes, P.; Oliveira, J.L.. "Exploring nanopublications integration in pharmacovigilance scenarios". 2013.
    10.1109/HealthCom.2013.6720773
  29. Ribeiro, L.S.; Honorio, F.; Oliveira, J.L.; Costa, C.. "Leveraging XDS-I and PIX workflows for validating cross-enterprise patient identity linkage". 2013.
    10.1109/HealthCom.2013.6720686
  30. Lopes, P.; Oliveira, J.L.. "Semantic rule processing for real-time data integration". 2013.
  31. Silva, L.A.B.; Campos, S.; Costa, C.; Oliveira, J.L.. "Integrating echocardiogram reports with medical imaging". 2013.
    10.1109/CBMS.2013.6627819
  32. Lopes, P.; Sernadela, P.; Oliveira, J.L.. "Exploring nanopublishing with COEUS". 2013.
  33. Viana-Ferreira, C.; Costa, C.; Oliveira, J.L.. "A multi-domain platform for medical imaging". 2013.
    10.1109/CBMS.2013.6627770
  34. Polónia, Daniel; Costa, Carlos M. A.; Oliveira, José Luis; Duarte, Manuel Oliveira. "Inequality problems in the distribution of radiologists in Portugal: Requirements for the creation of an imaging marketplace". Paper presented in eChallenges e-2009, Istambul, 2009.
    Published
  35. Lousado, J.P.; Moura, G.R.; Santos, M.A.S.; Oliveira, J.L.. "GeneSplit-uma aplicação para o estudo de associações de codões e de aminoácidos em ORFeomas". 2008.
  36. Oliveira, J.; Bartolomeu, P.; Fonseca, J.; Costa, L.C.. "Evaluating severe noise interference in IEEE 802.15.4 based location systems". 2008.
    10.1109/ETFA.2008.4638502
  37. Polónia, Daniel; Oliveira, José Luis; Duarte, Manuel Oliveira. "INFORMATION SYSTEMS IN THE THIRD AND FOURTH GENERATION MOBILE OPERATOR". Paper presented in 5ª Conferência da APSI: Associação Portuguesa de Sistemas de Informação, Lisboa, 2004.
    Published
  38. Lage, A.L.; Martins, J.S.B.; Oliveira, J.; Cunha, W.. "A quality of service framework for tele-medicine applications". 2004.
    10.1109/WEBMED.2004.1348140
  39. Costa, C.; Oliveira, J.L.; Silva, A.. "A new user-oriented model to manage multiple digital credentials". 2003.
  40. Lopes, R.P.; Oliveira, J.L.. "Application scenarios for distributed management using SNMP expressions". 2003.
  41. Lopes, R.P.; Oliveira, J.L.. "Agentapi: An API for the development of Managed agents". 2003.
  42. Roque, V.; Oliveira, J.L.; Lopes, R.P.. "Policies composition through graphical components". 2003.
  43. Lopes, R.P.; Oliveira, J.L.. "A multi-protocol architecture for SNMP entities". 2002.
    10.1109/IPOM.2002.1045759
  44. Lopes, R.P.; Oliveira, J.L.. "A uniform resource identifier scheme for SNMP". 2002.
    10.1109/IPOM.2002.1045761
  45. Oliveira, J.L.; Aguiar, R.L.. "QOS negotiation based on management delegates". 2001.
  46. Costa, C.M.A.; Oliveira, J.L.; Silva, A.. "A trusted brokering service for PKI interoperability and thin-clients integration". 2001.
  47. Lopes, R.P.; Oliveira, J.L.. "A new mechanism for distributed managers persistence". 2001.
  48. Lopes, R.P.; Oliveira, J.L.. "SNMP management of MASIF platforms". 2001.
    10.1109/INM.2001.918047
Conference poster
  1. Nelson R. C. Monteiro; Oliveira, José Luis; Joel P. Arrais. Corresponding author: Nelson R. C. Monteiro. "Intrinsic Explainability and Multi-Domain Inter-Dependency: End-to-End Drug-Target Binding Affinity Prediction with Transformers". Paper presented in Science and Technology Summit, 2013 (Ciência 2023), 2023.
  2. Torres, Luis H. M.; Nelson R. C. Monteiro; Ribeiro, Bernardete; Oliveira, José Luis; Arrais, Joel. "Siamese Neural Networks for One-Shot Drug Discovery". Paper presented in BOD2020, Bioinformatics Open Days 2020, 2020.
Journal article
  1. Nelson R. C. Monteiro; Oliveira, José Luis; Joel P. Arrais; Nelson R.C. Monteiro; José L. Oliveira; Joel P. Arrais. Corresponding author: Nelson R. C. Monteiro. "TAG-DTA: Binding-region-guided strategy to predict drug-target affinity using transformers". Expert Systems with Applications (2024): https://doi.org/10.1016/j.eswa.2023.122334.
    Published • 10.1016/j.eswa.2023.122334
  2. Nelson R.C. Monteiro; Tiago O. Pereira; Ana Catarina D. Machado; José L. Oliveira; Maryam Abbasi; Joel P. Arrais; Nelson R. C. Monteiro; et al. Corresponding author: Nelson R. C. Monteiro. "FSM-DDTR: End-to-end feedback strategy for multi-objective De Novo drug design using transformers". Computers in Biology and Medicine (2023): https://doi.org/10.1016/j.compbiomed.2023.107285.
    Published • 10.1016/j.compbiomed.2023.107285
  3. José M. Inácio; Fernando Cristo; Miguel Pinheiro; Francisco Vasques-Nóvoa; Francisca Saraiva; Mafalda M. Nunes; Graça Rosas; et al. "Myocardial RNA Sequencing Reveals New Potential Therapeutic Targets in Heart Failure with Preserved Ejection Fraction". Biomedicines (2023): https://doi.org/10.3390/biomedicines11082131.
    10.3390/biomedicines11082131
  4. Olga Fajarda; João Rafael Almeida; Sara Duarte-Pereira; Raquel M. Silva; José Luís Oliveira. "Methodology to identify a gene expression signature by merging microarray datasets". Computers in Biology and Medicine (2023): https://doi.org/10.1016/j.compbiomed.2023.106867.
    10.1016/j.compbiomed.2023.106867
  5. Sara Duarte-Pereira; Sérgio Matos; José Luís Oliveira; Raquel M. Silva. "Study of NAD-interacting proteins highlights the extent of NAD regulatory roles in the cell and its potential as a therapeutic target". Journal of Integrative Bioinformatics (2023): https://doi.org/10.1515/jib-2022-0049.
    10.1515/jib-2022-0049
  6. Dinis Barroqueiro Cruz; João Rafael Almeida; José Luís Oliveira. "Open Source Solutions for Vulnerability Assessment: A Comparative Analysis". IEEE Access (2023): https://doi.org/10.1109/ACCESS.2023.3315595.
    10.1109/ACCESS.2023.3315595
  7. Abbasi, Maryam; Beatriz P. Santos; Tiago C. Pereira; Raul Sofia; Nelson R. C. Monteiro; Simões, Carlos J. V. ; Rui M. M. Brito; et al. "Designing optimized drug candidates with Generative Adversarial Network". Journal of Cheminformatics 14 1 (2022): http://dx.doi.org/10.1186/s13321-022-00623-6.
    Published • 10.1186/s13321-022-00623-6
  8. Arnaldo Pereira; João Rafael Almeida; Rui Pedro Lopes; José Luís Oliveira. "Semantic Data Visualisation for Biomedical Database Catalogues". Healthcare (2022): https://doi.org/10.3390/healthcare10112287.
    10.3390/healthcare10112287
  9. Monteiro, Nelson; Simões, Carlos J. V. ; Henrique V. Ávila; Oliveira, José Luis; Joel P. Arrais. Corresponding author: Monteiro, Nelson. "Explainable deep drug-target representations for binding affinity prediction". BMC Bioinformatics 23 1 (2022): http://dx.doi.org/10.1186/s12859-022-04767-y.
    Published • 10.1186/s12859-022-04767-y
  10. Nelson R. C. Monteiro; Oliveira, José Luis; Joel P. Arrais. Corresponding author: Nelson R. C. Monteiro. "DTITR: End-to-end drug-target binding affinity prediction with transformers". Computers in Biology and Medicine (2022): https://doi.org/10.1016/j.compbiomed.2022.105772.
    Published • 10.1016/j.compbiomed.2022.105772
  11. Arnaldo Pereira; Alina Trifan; Rui Pedro Lopes; José Luís Oliveira. "Systematic review of question answering over knowledge bases". IET Software 16 1 (2022): 1-13. https://doi.org/10.1049/sfw2.12028.
    10.1049/sfw2.12028
  12. João R. Almeida; Leonardo Coelho; José L. Oliveira. "BIcenter: A collaborative Web ETL solution based on a reflective software approach". SoftwareX 16 (2021): 100892-100892. https://doi.org/10.1016/j.softx.2021.100892.
    10.1016/j.softx.2021.100892
  13. João Rafael Almeida; Diogo Pratas; José Luís Oliveira. "A semi-automatic methodology for analysing distributed and private biobanks". Computers in Biology and Medicine 130 (2021): 104180-104180. https://doi.org/10.1016/j.compbiomed.2020.104180.
    10.1016/j.compbiomed.2020.104180
  14. João Rafael Almeida; Luís Bastão Silva; Isabelle Bos; Pieter Jelle Visser; José Luís Oliveira. "A methodology for cohort harmonisation in multicentre clinical research". Informatics in Medicine Unlocked 27 (2021): 100760-100760. https://doi.org/10.1016/j.imu.2021.100760.
    10.1016/j.imu.2021.100760
  15. Arnaldo Pereira; Rui Pedro Lopes; José Luís Oliveira. "SCALEUS-FD: A FAIR Data Tool for Biomedical Applications". BioMed Research International (2020): https://doi.org/10.1155/2020/3041498.
    10.1155/2020/3041498
  16. João Rafael Almeida; Rosa Gini; Giuseppe Roberto; Peter Rijnbeek; José Luís Oliveira. "TASKA: A modular task management system to support health research studies". BMC Medical Informatics and Decision Making (2019): https://doi.org/10.1186/s12911-019-0844-6.
    10.1186/s12911-019-0844-6
  17. Fernanda B. Correia; Edgar D. Coelho; José L. Oliveira; Joel P. Arrais. "Handling Noise in Protein Interaction Networks". BioMed Research International (2019): https://doi.org/10.1155/2019/8984248.
    10.1155/2019/8984248
  18. Alina Trifan; Maryse Oliveira; José Luís Oliveira. "Passive Sensing of Health Outcomes Through Smartphones: Systematic Review of Current Solutions and Possible Limitations". JMIR mHealth and uHealth 7 8 (2019): e12649-e12649. https://doi.org/10.2196/12649.
    10.2196/12649
  19. Alina Trifan; José Luís Oliveira. "Patient data discovery platforms as enablers of biomedical and translational research: A systematic review". Journal of Biomedical Informatics 93 (2019): 103154-103154. https://doi.org/10.1016/j.jbi.2019.103154.
    10.1016/j.jbi.2019.103154
  20. Assel Syzdykova; André Malta; Maria Zolfo; Ermias Diro; José Luis Oliveira. "Open-Source Electronic Health Record Systems for Low-Resource Settings: Systematic Review". JMIR Medical Informatics 5 4 (2017): e44-e44. https://doi.org/10.2196/medinform.8131.
    10.2196/medinform.8131
  21. Luis Bastiao Silva; Rafael C. Jimenez; Niklas Blomberg; José Luis Oliveira. "General guidelines for biomedical software development". F1000Research 6 (2017): 273-273. https://doi.org/10.12688/f1000research.10750.2.
    10.12688/f1000research.10750.2
  22. Luis Bastiao Silva; Rafael C. Jimenez; Niklas Blomberg; José Luis Oliveira. "General guidelines for biomedical software development [version 1; referees: awaiting peer review]". (2017): https://f1000research.com/articles/6-273/v1.
    10.12688/f1000research.10750.1
  23. Monteiro, E.; Costa, C.; Oliveira, J.L.. "A De-Identification Pipeline for Ultrasound Medical Images in DICOM Format". Journal of Medical Systems 41 5 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85017457466&partnerID=MN8TOARS.
    10.1007/s10916-017-0736-1
  24. Sernadela, P.; González-Castro, L.; Oliveira, J.L.. "SCALEUS: Semantic Web Services Integration for Biomedical Applications". Journal of Medical Systems 41 4 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85013301875&partnerID=MN8TOARS.
    10.1007/s10916-017-0705-8
  25. Pedro Sernadela; Lorena González-Castro; Claudio Carta; Eelke van der Horst; Pedro Lopes; Rajaram Kaliyaperumal; Mark Thompson; et al. "Linked Registries: Connecting Rare Diseases Patient Registries through a Semantic Web Layer". BioMed Research International 2017 (2017): 1-13. https://doi.org/10.1155/2017/8327980.
    10.1155/2017/8327980
  26. Gaspar, P.; Moura, G.; Santos, M.A.S.; Oliveira, J.L.. "Erratum : mRNA secondary structure optimization using a correlated stem-loop prediction (Nucleic Acids Research (2013) 41:6 (e73) DOI: 10.1093/nar/gks1473)". Nucleic Acids Research 44 11 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84976435942&partnerID=MN8TOARS.
    10.1093/nar/gkw127
  27. Coelho, E.D.; Arrais, J.P.; Oliveira, J.L.. "Computational Discovery of Putative Leads for Drug Repositioning through Drug-Target Interaction Prediction". PLoS Computational Biology 12 11 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84999751697&partnerID=MN8TOARS.
    10.1371/journal.pcbi.1005219
  28. Matos, S.; Campos, D.; Pinho, R.; Silva, R.M.; Mort, M.; Cooper, D.N.; Oliveira, J.L.. "Mining clinical attributes of genomic variants through assisted literature curation in Egas". Database 2016 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-85009124421&partnerID=MN8TOARS.
    10.1093/database/baw096
  29. Monteiro, E.J.M.; Costa, C.; Oliveira, J.L.. "A cloud architecture for teleradiology-as-a-service". Methods of Information in Medicine 55 3 (2016): 203-214. http://www.scopus.com/inward/record.url?eid=2-s2.0-84968867602&partnerID=MN8TOARS.
    10.3414/ME14-01-0052
  30. Moura, G.R.; Pinheiro, M.; Freitas, A.; Oliveira, J.L.; Frommlet, J.C.; Carreto, L.; Soares, A.R.; Bezerra, A.R.; Santos, M.A.S.. "Erratum: Species-Specific Codon Context Rules Unveil Non-Neutrality Effects of Synonymous Mutations (PLoS ONE (2011) 6:10 (e26817))". PLoS ONE 10 12 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84956899012&partnerID=MN8TOARS.
    10.1371/journal.pone.0145593
  31. Silva, L.A.B.; Ribeiro, L.S.; Santos, M.; Neves, N.; Francisco, D.; Costa, C.; Oliveira, J.L.. "Normalizing Heterogeneous Medical Imaging Data to Measure the Impact of Radiation Dose". Journal of Digital Imaging 28 6 (2015): 671-683. http://www.scopus.com/inward/record.url?eid=2-s2.0-84946490879&partnerID=MN8TOARS.
    10.1007/s10278-015-9805-5
  32. Soares, A.R.; Fernandes, N.; Reverendo, M.; Araújo, H.R.; Oliveira, J.L.; Moura, G.M.R.; Santos, M.A.S.. "Conserved and highly expressed tRNA derived fragments in zebrafish". BMC Molecular Biology 16 1 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84951822589&partnerID=MN8TOARS.
    10.1186/s12867-015-0050-8
  33. Lopes, P.; Silva, L.B.; Oliveira, J.L.. "Challenges and opportunities for exploring patient-level data". BioMed Research International 2015 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84945400618&partnerID=MN8TOARS.
    10.1155/2015/150435
  34. Campos, D.; Matos, S.; Oliveira, J.L.. "A document processing pipeline for annotating chemical entities in scientific documents". Journal of Cheminformatics 7 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84946128141&partnerID=MN8TOARS.
    10.1186/1758-2946-7-S1-S7
  35. Ragionieri, L.; Vitorino, R.; Frommlet, J.; Oliveira, J.L.; Gaspar, P.; Ribas De Pouplana, L.; Santos, M.A.S.; Moura, G.R.. "Improving the accuracy of recombinant protein production through integration of bioinformatics, statistical and mass spectrometry methodologies". FEBS Journal 282 4 (2015): 769-787. http://www.scopus.com/inward/record.url?eid=2-s2.0-84923212005&partnerID=MN8TOARS.
    10.1111/febs.13181
  36. Coelho, E.D.; Santiago, A.M.; Arrais, J.P.; Oliveira, J.L.. "Computational methodology for predicting the landscape of the human-microbial interactome region level influence". Journal of Bioinformatics and Computational Biology 13 5 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84947041842&partnerID=MN8TOARS.
    10.1142/S0219720015500237
  37. Arevalo, J.; González, F.A.; Ramos-Pollán, R.; Oliveira, J.L.; Guevara Lopez, M.A.. "Representation learning for mammography mass lesion classification with convolutional neural networks". Computer Methods and Programs in Biomedicine (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84955570567&partnerID=MN8TOARS.
    10.1016/j.cmpb.2015.12.014
  38. Vanegas, J.A.; Matos, S.; Gonzalez, F.; Oliveira, J.L.. "An Overview of Biomolecular Event Extraction from Scientific Documents". Computational and Mathematical Methods in Medicine 2015 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84947447541&partnerID=MN8TOARS.
    10.1155/2015/571381
  39. Perdiz Arrais, J.; Oliveira, J.L.. "RecRWR: A recursive random walk method for improved identification of diseases". BioMed Research International 2015 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84927144569&partnerID=MN8TOARS.
    10.1155/2015/747156
  40. Ribeiro, L.S.; Viana-Ferreira, C.; Oliveira, J.L.; Costa, C.. "XDS-I outsourcing proxy: Ensuring confidentiality while preserving interoperability". IEEE Journal of Biomedical and Health Informatics 18 4 (2014): 1404-1412. http://www.scopus.com/inward/record.url?eid=2-s2.0-84904289764&partnerID=MN8TOARS.
    10.1109/JBHI.2013.2292776
  41. Reboiro-Jato, M.; Arrais, J.P.; Oliveira, J.L.; Fdez-Riverola, F.. "GeneCommittee: A web-based tool for extensively testing the discriminatory power of biologically relevant gene sets in microarray data classification". BMC Bioinformatics 15 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84893179202&partnerID=MN8TOARS.
    10.1186/1471-2105-15-31
  42. Coelho, E.D.; Arrais, J.P.; Matos, S.; Pereira, C.; Rosa, N.; Correia, M.J.; Barros, M.; Oliveira, J.L.. "Computational prediction of the human-microbial oral interactome". BMC Systems Biology 8 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84897570043&partnerID=MN8TOARS.
    10.1186/1752-0509-8-24
  43. Rosa, N.; Correia, M.J.; Arrais, J.P.; Costa, N.; Oliveira, J.L.; Barros, M.. "The landscape of protein biomarkers proposed for periodontal disease: Markers with functional meaning". BioMed Research International 2014 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84904108852&partnerID=MN8TOARS.
    10.1155/2014/569632
  44. Campos, D.; Lourenço, J.; Matos, S.; Oliveira, J.L.. "Egas: A collaborative and interactive document curation platform". Database 2014 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84987673679&partnerID=MN8TOARS.
    10.1093/database/bau048
  45. Prieto, V.M.; Matos, S.; Álvarez, M.; Cacheda, F.; Oliveira, J.L.. "Twitter: A good place to detect health conditions". PLoS ONE 9 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84900419026&partnerID=MN8TOARS.
    10.1371/journal.pone.0086191
  46. Silva, L.A.B.; Campos, S.; Costa, C.; Oliveira, J.L.. "Sensor-based architecture for medical imaging workflow analysis systems-level quality improvement". Journal of Medical Systems 38 8 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84904038647&partnerID=MN8TOARS.
    10.1007/s10916-014-0063-8
  47. Campos, D.; Bui, Q.-C.; Matos, S.; Oliveira, J.L.. "TrigNER: Automatically optimized biomedical event trigger recognition on scientific documents". Source Code for Biology and Medicine 9 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84892661802&partnerID=MN8TOARS.
    10.1186/1751-0473-9-1
  48. Arrais, J.P.; Rosa, N.; Melo, J.; Coelho, E.D.; Amaral, D.; Correia, M.J.; Barros, M.; Oliveira, J.L.. "OralCard: A bioinformatic tool for the study of oral proteome". Archives of Oral Biology 58 7 (2013): 762-772. http://www.scopus.com/inward/record.url?eid=2-s2.0-84878216035&partnerID=MN8TOARS.
    10.1016/j.archoralbio.2012.12.012
  49. Nunes, T.; Campos, D.; Matos, S.; Oliveira, J.L.. "BeCAS: Biomedical concept recognition services and visualization". Bioinformatics 29 15 (2013): 1915-1916. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880552535&partnerID=MN8TOARS.
    10.1093/bioinformatics/btt317
  50. Coloma, P.M.; Schuemie, M.J.; Trifirò, G.; Furlong, L.; van Mulligen, E.; Bauer-Mehren, A.; Avillach, P.; et al. "Drug-Induced Acute Myocardial Infarction: Identifying 'Prime Suspects' from Electronic Healthcare Records-Based Surveillance System". PLoS ONE 8 8 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84883144641&partnerID=MN8TOARS.
    10.1371/journal.pone.0072148
  51. Bastião Silva, L.A.; Costa, C.; Oliveira, J.L.. "A common API for delivering services over multi-vendor cloud resources". Journal of Systems and Software 86 9 (2013): 2309-2317. http://www.scopus.com/inward/record.url?eid=2-s2.0-84881477740&partnerID=MN8TOARS.
    10.1016/j.jss.2013.04.037
  52. Campos, D.; Matos, S.; Oliveira, J.L.. "A modular framework for biomedical concept recognition". BMC Bioinformatics 14 1 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84884469671&partnerID=MN8TOARS.
    10.1186/1471-2105-14-281
  53. Cases, M.; Furlong, L.I.; Albanell, J.; Altman, R.B.; Bellazzi, R.; Boyer, S.; Brand, A.; et al. "Improving data and knowledge management to better integrate health care and research". Journal of Internal Medicine 274 4 (2013): 321-328. http://www.scopus.com/inward/record.url?eid=2-s2.0-84883742021&partnerID=MN8TOARS.
    10.1111/joim.12105
  54. Silva, L.A.B.; Pinho, R.; Ribeiro, L.S.; Costa, C.; Oliveira, J.L.. "A Centralized Platform for Geo-Distributed PACS Management". Journal of Digital Imaging (2013): 1-9. http://www.scopus.com/inward/record.url?eid=2-s2.0-84885525196&partnerID=MN8TOARS.
    10.1007/s10278-013-9650-3
  55. Coelho, E.D.; Arrais, J.P.; Oliveira, J.L.. "From protein-protein interactions to rational drug design: Are computational methods up to the challenge?". Current Topics in Medicinal Chemistry 13 5 (2013): 602-618. http://www.scopus.com/inward/record.url?eid=2-s2.0-84878589163&partnerID=MN8TOARS.
    10.2174/1568026611313050005
  56. Prieto, V.M.; Matos, S.; Álvarez, M.; Cacheda, F.; Oliveira, J.L.. "Analysing Relevant Diseases from Iberian Tweets". Advances in Intelligent Systems and Computing 222 (2013): 69-76. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880375780&partnerID=MN8TOARS.
    10.1007/978-3-319-00578-2_10
  57. Barbosa, F.C.; Arrais, J.P.; Oliveira, J.L.. "Quantitative Characterization of Protein Networks of the Oral Cavity". Advances in Intelligent Systems and Computing 222 (2013): 61-68. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880338730&partnerID=MN8TOARS.
    10.1007/978-3-319-00578-2_9
  58. Lopes, P.; Oliveira, J.L.. "An innovative portal for rare genetic diseases research: The semantic Diseasecard". Journal of Biomedical Informatics (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84883470453&partnerID=MN8TOARS.
    10.1016/j.jbi.2013.08.006
  59. Godinho, T.M.; Silva, L.A.B.; Viana-Ferreira, C.; Costa, C.; Oliveira, J.L.. "Enhanced regional network for medical imaging repositories". Iberian Conference on Information Systems and Technologies, CISTI (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84887947734&partnerID=MN8TOARS.
  60. Mendonca, R.; Rosa, A.F.; Oliveira, J.L.; Teixeira, A.. "Ontology-based health information search: Application to the neurological disease domain". Iberian Conference on Information Systems and Technologies, CISTI (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84887971150&partnerID=MN8TOARS.
  61. Gaspar, P.; Lopes, P.; Oliveira, J.; Santos, R.; Dalgleish, R.; Oliveira, J.L.. "Variobox: Automatic Detection and Annotation of Human Genetic Variants". Human Mutation (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84887910540&partnerID=MN8TOARS.
    10.1002/humu.22474
  62. Matos, S.; Araújo, H.; Oliveira, J.L.. "Structuring and exploring the biomedical literature using latent semantics". Advances in Intelligent Systems and Computing 217 (2013): 609-616. http://www.scopus.com/inward/record.url?eid=2-s2.0-84891135595&partnerID=MN8TOARS.
    10.1007/978-3-319-00551-5_72
  63. Gaspar, Paulo; Moura, Gabriela; Santos, Manuel A. S.; Oliveira, Jose Luis. "mRNA secondary structure optimization using a correlated stem-loop prediction". Nucleic Acids Research 41 6 (2013):
    10.1093/nar/gks1473
  64. Campos, David; Matos, Sergio; Oliveira, Jose Luis. "Gimli: open source and high-performance biomedical name recognition". Bmc Bioinformatics 14 (2013):
    10.1186/1471-2105-14-54
  65. Lopes, P.; Nunes, T.; Campos, D.; Furlong, L.I.; Bauer-Mehren, A.; Sanz, F.; Carrascosa, M.C.; et al. "Gathering and exploring scientific knowledge in pharmacovigilance". PLoS ONE 8 12 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84892404109&partnerID=MN8TOARS.
    10.1371/journal.pone.0083016
  66. Oliveira, J.L.; Lopes, P.; Nunes, T.; Campos, D.; Boyer, S.; Ahlberg, E.; van Mulligen, E.M.; et al. "The EU-ADR Web Platform: Delivering advanced pharmacovigilance tools". Pharmacoepidemiology and Drug Safety 22 5 (2013): 459-467. http://www.scopus.com/inward/record.url?eid=2-s2.0-84877591332&partnerID=MN8TOARS.
    10.1002/pds.3375
  67. Ribeiro, L.S.; Costa, C.; Oliveira, J.L.. "Enhancing the many-to-many relations across IHE document sharing communities". Studies in Health Technology and Informatics 180 (2012): 641-645. http://www.scopus.com/inward/record.url?eid=2-s2.0-84872536540&partnerID=MN8TOARS.
    10.3233/978-1-61499-101-4-641
  68. Viana-Ferreira, C.; Ferreira, D.; Valente, F.; Monteiro, E.; Costa, C.; Oliveira, J.L.. "Dicoogle Mobile: A medical imaging platform for Android". Studies in Health Technology and Informatics 180 (2012): 502-506. http://www.scopus.com/inward/record.url?eid=2-s2.0-84872518920&partnerID=MN8TOARS.
    10.3233/978-1-61499-101-4-502
  69. Melo, J.; Arrais, J.P.; Lopes, P.; Rosa, N.; Correia, M.J.; Barros, M.; Oliveira, J.L.. "Web information system for the study of oral health". HEALTHINF 2012 - Proceedings of the International Conference on Health Informatics (2012): 97-105. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861982590&partnerID=MN8TOARS.
  70. Mendonça, R.; Lopes, P.; Rocha, H.; Oliveira, J.; Vilarinho, L.; Santos, R.; Oliveira, J.L.. "Gathering and managing genotype and phenotype information about rare diseases patients". HEALTHINF 2012 - Proceedings of the International Conference on Health Informatics (2012): 423-426. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861985300&partnerID=MN8TOARS.
  71. Rosa, N.; Correia, M.J.; Arrais, J.P.; Lopes, P.; Melo, J.; Oliveira, J.L.; Barros, M.. "From the salivary proteome to the OralOme: Comprehensive molecular oral biology". Archives of Oral Biology 57 7 (2012): 853-864. http://www.scopus.com/inward/record.url?eid=2-s2.0-84862872419&partnerID=MN8TOARS.
    10.1016/j.archoralbio.2011.12.010
  72. Costa, C.; Oliveira, J.L.. "Telecardiology through ubiquitous Internet services". International Journal of Medical Informatics 81 9 (2012): 612-621. http://www.scopus.com/inward/record.url?eid=2-s2.0-84865106654&partnerID=MN8TOARS.
    10.1016/j.ijmedinf.2012.05.011
  73. Lousado, J.P.; Oliveira, J.L.; Moura, G.; Santos, M.A.S.. "An integrative approach for codon repeats evolutionary analyses". International Journal of Data Mining and Bioinformatics 6 4 (2012): 369-381. http://www.scopus.com/inward/record.url?eid=2-s2.0-84867019138&partnerID=MN8TOARS.
    10.1504/IJDMB.2012.049294
  74. Gaspar, P.; Oliveira, J.L.. "Advantages of a Pareto-based genetic algorithm to solve the gene synthetic design problem". Current Bioinformatics 7 3 (2012): 304-309. http://www.scopus.com/inward/record.url?eid=2-s2.0-84866669905&partnerID=MN8TOARS.
    10.2174/157489312802460712
  75. Gaspar, P.; Oliveira, J.L.; Frommlet, J.; Santos, M.A.S.; Moura, G.. "EuGene: Maximizing synthetic gene design for heterologous expression". Bioinformatics 28 20 (2012): 2683-2684. http://www.scopus.com/inward/record.url?eid=2-s2.0-84870439703&partnerID=MN8TOARS.
    10.1093/bioinformatics/bts465
  76. Gonçalves, P.; Oliveira, J.L.; Aguiar, R.. "A study of encoding overhead in network management protocols". International Journal of Network Management 22 6 (2012): 435-450. http://www.scopus.com/inward/record.url?eid=2-s2.0-84867892559&partnerID=MN8TOARS.
    10.1002/nem.1801
  77. Silva, L.A.B.; Costa, C.; Oliveira, J.L.. "DICOM relay over the cloud". International Journal of Computer Assisted Radiology and Surgery (2012): 1-11. http://www.scopus.com/inward/record.url?eid=2-s2.0-84864739749&partnerID=MN8TOARS.
    10.1007/s11548-012-0785-3
  78. Mendonça, R.; Rosa, A.F.; Oliveira, J.L.; Teixeira, A.. "Towards ontology based health information search in Portuguese - A case study in neurologic diseases". Iberian Conference on Information Systems and Technologies, CISTI (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84869022464&partnerID=MN8TOARS.
  79. Ribeiro, L.S.; Costa, C.; Oliveira, J.L.. "Clustering of distinct PACS archives using a cooperative peer-to-peer network". Computer Methods and Programs in Biomedicine 108 3 (2012): 1002-1011. http://www.scopus.com/inward/record.url?eid=2-s2.0-84868521138&partnerID=MN8TOARS.
    10.1016/j.cmpb.2012.05.013
  80. Gaspar, P.; Carbonell, J.; Oliveira, J.L.. "On the parameter optimization of Support Vector Machines for binary classification.". Journal of integrative bioinformatics 9 3 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84875030336&partnerID=MN8TOARS.
  81. Santos, C.; Pedrosa, T.; Costa, C.; Oliveira, J.L.. "Concepts for a Personal Health Record". Studies in Health Technology and Informatics 180 (2012): 636-640. http://www.scopus.com/inward/record.url?eid=2-s2.0-84872558617&partnerID=MN8TOARS.
    10.3233/978-1-61499-101-4-636
  82. Viana-Ferreira, C.; Costa, C.; Oliveira, J.L.. "Dicoogle relay - A cloud communications bridge for medical imaging". Proceedings - IEEE Symposium on Computer-Based Medical Systems (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84867301732&partnerID=MN8TOARS.
    10.1109/CBMS.2012.6266402
  83. Bauer-Mehren, A.; van Mullingen, E.M.; Avillach, P.; del Carmen Carrascosa, M.; Garcia-Serna, R.; Piñero, J.; Singh, B.; et al. "Automatic filtering and substantiation of drug safety signals". PLoS Computational Biology 8 4 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84861122386&partnerID=MN8TOARS.
    10.1371/journal.pcbi.1002457
  84. Lopes, P.; Oliveira, J.L.. "COEUS: A Semantic Web application framework". ACM International Conference Proceeding Series (2012): 66-73. http://www.scopus.com/inward/record.url?eid=2-s2.0-84859920065&partnerID=MN8TOARS.
    10.1145/2166896.2166915
  85. Campos, D.; Matos, S.; Lewin, I.; Oliveira, J.L.; Rebholz-Schuhmann, D.. "Harmonization of gene/protein annotations: Towards a gold standard medline". Bioinformatics 28 9 (2012): 1253-1261. http://www.scopus.com/inward/record.url?eid=2-s2.0-84860473173&partnerID=MN8TOARS.
    10.1093/bioinformatics/bts125
  86. Bastião Silva, L.A.; Costa, C.; Oliveira, J.L.. "A PACS archive architecture supported on cloud services". International Journal of Computer Assisted Radiology and Surgery 7 3 (2012): 349-358. http://www.scopus.com/inward/record.url?eid=2-s2.0-84862979352&partnerID=MN8TOARS.
    10.1007/s11548-011-0625-x
  87. Valente, F.; Viana-Ferreira, C.; Costa, C.; Oliveira, J.L.. "A RESTful image gateway for multiple medical image repositories". IEEE Transactions on Information Technology in Biomedicine 16 3 (2012): 356-364. http://www.scopus.com/inward/record.url?eid=2-s2.0-84860675556&partnerID=MN8TOARS.
    10.1109/TITB.2011.2176497
  88. Lopes, P.; Mendonça, R.; Rocha, H.; Oliveira, J.; Vilarinho, L.; Santos, R.; Oliveira, J.L.. "A rare disease patient manager". Advances in Intelligent and Soft Computing 154 AISC (2012): 173-180. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861212295&partnerID=MN8TOARS.
    10.1007/978-3-642-28839-5_20
  89. Gaspar, P.; Carbonell, J.; Oliveira, J.L.. "Parameter influence in genetic algorithm optimization of support vector machines". Advances in Intelligent and Soft Computing 154 AISC (2012): 43-51. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861217450&partnerID=MN8TOARS.
    10.1007/978-3-642-28839-5_5
  90. Velte, L.; Pedrosa, T.; Costa, C.; Oliveira, J.L.. "An openehr repository based on a native XML database". HEALTHINF 2012 - Proceedings of the International Conference on Health Informatics (2012): 386-389. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861978859&partnerID=MN8TOARS.
  91. Pedrosa, T.; Lopes, R.P.; Santos, J.C.; Costa, C.; Oliveira, J.L.. "A secure personal health record repository". HEALTHINF 2012 - Proceedings of the International Conference on Health Informatics (2012): 243-248. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861985443&partnerID=MN8TOARS.
  92. Silva, L.A.B.; Costa, C.; Oliveira, J.L.. "A DICOM relay service supported on cloud resources". HEALTHINF 2012 - Proceedings of the International Conference on Health Informatics (2012): 409-412. http://www.scopus.com/inward/record.url?eid=2-s2.0-84861968982&partnerID=MN8TOARS.
  93. Bastião Silva, L.A.; Costa, C.; Silva, A.; Oliveira, J.L.. "A PACS gateway to the cloud". Proceedings of the 6th Iberian Conference on Information Systems and Technologies, CISTI 2011 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-80052507826&partnerID=MN8TOARS.
  94. Freitas, A.; Afreixo, V.; Pinheiro, M.; Oliveira, J.L.; Moura, G.; Santos, M.. "Improving the performance of the iterative signature algorithm for the identification of relevant patterns". Statistical Analysis and Data Mining 4 1 (2011): 71-83. http://www.scopus.com/inward/record.url?eid=2-s2.0-79551712212&partnerID=MN8TOARS.
    10.1002/sam.10104
  95. Lopes, P.; Dalgleish, R.; Oliveira, J.L.. "WAVe: Web analysis of the variome". Human Mutation 32 7 (2011): 729-734. http://www.scopus.com/inward/record.url?eid=2-s2.0-79959758966&partnerID=MN8TOARS.
    10.1002/humu.21499
  96. Pedrosa, T.; Lopes, R.P.; Santos, J.C.; Costa, C.; Oliveira, J.L.. "Hybrid electronic health records". HEALTHINF 2011 - Proceedings of the International Conference on Health Informatics (2011): 571-574. http://www.scopus.com/inward/record.url?eid=2-s2.0-79960192049&partnerID=MN8TOARS.
  97. Santos, C.; Pedrosa, T.; Costa, C.; Oliveira, J.L.. "On the use of openEHR in a portable PHR". HEALTHINF 2011 - Proceedings of the International Conference on Health Informatics (2011): 351-356. http://www.scopus.com/inward/record.url?eid=2-s2.0-79960172418&partnerID=MN8TOARS.
  98. Matos, S.; Oliveira, J.L.. "Prioritizing literature search results using a training set of classified documents". Advances in Intelligent and Soft Computing 93 (2011): 381-388. http://www.scopus.com/inward/record.url?eid=2-s2.0-80052949641&partnerID=MN8TOARS.
    10.1007/978-3-642-19914-1_49
  99. Costa, C.; Ferreira, C.; Bastião, L.; Ribeiro, L.; Silva, A.; Oliveira, J.L.. "Dicoogle - An open source peer-to-peer PACS". Journal of Digital Imaging 24 5 (2011): 848-856. http://www.scopus.com/inward/record.url?eid=2-s2.0-84855567679&partnerID=MN8TOARS.
    10.1007/s10278-010-9347-9
  100. Moura, G.R.; Pinheiro, M.; Freitas, A.; Oliveira, J.L.; Frommlet, J.C.; Carreto, L.; Soares, A.R.; Bezerra, A.R.; Santos, M.A.S.. "Species-specific codon context rules unveil non-neutrality effects of synonymous mutations". PLoS ONE 6 10 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-80055031054&partnerID=MN8TOARS.
    10.1371/journal.pone.0026817
  101. Fiorelli, A.I.; Coelho, G.B.; Santos, R.H.B.; Oliveira Jr., J.L.; Aielo, V.; Benvenuti, L.; Oliveira, A.S.; et al. "Successful endomyocardial biopsy guided by transthoracic two-dimensional echocardiography". Transplantation Proceedings 43 1 (2011): 225-228. http://www.scopus.com/inward/record.url?eid=2-s2.0-79951783115&partnerID=MN8TOARS.
    10.1016/j.transproceed.2010.12.049
  102. Fiorelli, A.I.; Santos, R.H.B.; Oliveira Jr., J.L.; Lourenço-Filho, D.D.; Dias, R.R.; Oliveira, A.S.; Da Silva, M.F.A.; et al. "Heart transplantation in 107 cases of Chagas' disease". Transplantation Proceedings 43 1 (2011): 220-224. http://www.scopus.com/inward/record.url?eid=2-s2.0-79951778856&partnerID=MN8TOARS.
    10.1016/j.transproceed.2010.12.046
  103. Fiorelli, A.I.; Stolf, N.A.G.; Pego-Fernandes, P.M.; Oliveira Jr., J.L.; Santos, R.H.B.; Contreras, C.A.M.; Filho, D.D.L.; et al. "Recommendations for use of marginal donors in heart transplantation: Brazilian association of organs transplantation guideline". Transplantation Proceedings 43 1 (2011): 211-215. http://www.scopus.com/inward/record.url?eid=2-s2.0-79951792323&partnerID=MN8TOARS.
    10.1016/j.transproceed.2010.12.047
  104. Fiorelli, A.I.; Santos, R.H.B.; Oliveira Jr., J.L.; Da Silva, M.A.F.; Dos Santos Jr., V.P.; Rêgo, F.M.P.; Souza, G.E.; et al. "Long-term pulmonary vascular reactivity after orthotopic heart transplantation by the biatrial versus the bicaval technique". Transplantation Proceedings 43 1 (2011): 229-232. http://www.scopus.com/inward/record.url?eid=2-s2.0-79951777869&partnerID=MN8TOARS.
    10.1016/j.transproceed.2010.12.045
  105. Lopes, P.; Oliveira, J.L.. "Towards knowledge federation in biomedical applications". ACM International Conference Proceeding Series (2011): 87-94. http://www.scopus.com/inward/record.url?eid=2-s2.0-82055208502&partnerID=MN8TOARS.
    10.1145/2063518.2063530
  106. Arrais, J.P.; Lopes, P.; Oliveira, J.L.. "Challenges storing and representing biomedical data". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 7058 LNCS (2011): 53-62. http://www.scopus.com/inward/record.url?eid=2-s2.0-82155197287&partnerID=MN8TOARS.
    10.1007/978-3-642-25364-5_6
  107. Matos, S.; Oliveira, J.L.. "Classification methods for finding articles describing protein-protein interactions in PubMed.". Journal of integrative bioinformatics 8 3 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-84855546021&partnerID=MN8TOARS.
  108. Tavares, P.; Gonçalves, P.; Oliveira, J.L.. "An IDE for NETCONF management applications". 2011 7th Latin American Network Operations and Management Symposium, LANOMS 2011 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-84863314057&partnerID=MN8TOARS.
    10.1109/LANOMS.2011.6102269
  109. Lopes, P.; Oliveira, J.L.. "A semantic web application framework for health systems interoperability". International Conference on Information and Knowledge Management, Proceedings (2011): 87-90. http://www.scopus.com/inward/record.url?eid=2-s2.0-83255173885&partnerID=MN8TOARS.
    10.1145/2064747.2064768
  110. Brochhausen, M.; Burgun, A.; Ceusters, W.; Hasman, A.; Leong, T.Y.; Musen, M.; Oliveira, J.L.; et al. "Discussion of "Biomedical ontologies: Toward scientific debate"". Methods of Information in Medicine 50 3 (2011): 217-236. http://www.scopus.com/inward/record.url?eid=2-s2.0-80155199311&partnerID=MN8TOARS.
  111. Fiorelli, A.I.; Oliveira Jr., J.L.; Santos, R.H.B.; Coelho, G.B.; Oliveira, A.S.; Lourenç-Filho, D.D.; Lapenna, G.; et al. "Can tricuspid annuloplasty of the donor heart reduce valve insufficiency following cardiac transplantation with bicaval anastomosis?". Heart Surgery Forum 13 3 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77953594608&partnerID=MN8TOARS.
    10.1532/HSF98.20091146
  112. Pedrosa, T.; Lopes, R.P.; Santos, J.C.; Costa, C.; Oliveira, J.L.. "Towards an EHR architecture for mobile citizens". HEALTHINF 2010 - 3rd International Conference on Health Informatics, Proceedings (2010): 288-293. http://www.scopus.com/inward/record.url?eid=2-s2.0-77956306890&partnerID=MN8TOARS.
  113. Santos, J.; Pedrosa, T.; Costa, C.; Oliveira, J.. "Modelling a portable Personal Health Record". HEALTHINF 2010 - 3rd International Conference on Health Informatics, Proceedings (2010): 465-468. http://www.scopus.com/inward/record.url?eid=2-s2.0-77956310891&partnerID=MN8TOARS.
  114. Ribeiro, L.S.; Bastião, L.; Costa, C.; Oliveira, J.L.. "Email-P2P gateway to distributed medical imaging repositories". HEALTHINF 2010 - 3rd International Conference on Health Informatics, Proceedings (2010): 310-315. http://www.scopus.com/inward/record.url?eid=2-s2.0-77956355091&partnerID=MN8TOARS.
  115. Santos, J.; Pedrosa, T.; Ferreira, C.; Costa, C.; Oliveira, J.. "Gathering and managing diagnostic tests". Proceedings of the 5th Iberian Conference on Information Systems and Technologies, CISTI 2010 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77957827925&partnerID=MN8TOARS.
  116. Campos, D.; Matos, S.; Oliveira, J.L.. "Recognition of gene/protein names using conditional random fields". KDIR 2010 - Proceedings of the International Conference on Knowledge Discovery and Information Retrieval (2010): 275-280. http://www.scopus.com/inward/record.url?eid=2-s2.0-78651435591&partnerID=MN8TOARS.
  117. Lopes, P.; Campos, D.; Oliveira, J.L.. "A tagging system for bioinformatics resources". Proceedings of the IEEE/EMBS Region 8 International Conference on Information Technology Applications in Biomedicine, ITAB (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-79951608006&partnerID=MN8TOARS.
    10.1109/ITAB.2010.5687781
  118. Arrais, J.P.; Oliveira, J.L.. "Gene-disease prioritization through biomedical networks". Proceedings of the IEEE/EMBS Region 8 International Conference on Information Technology Applications in Biomedicine, ITAB (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-79951594865&partnerID=MN8TOARS.
    10.1109/ITAB.2010.5687629
  119. Arrais, J.P.; Oliveira, J.L.. "On the exploitation of cloud computing in bioinformatics". Proceedings of the IEEE/EMBS Region 8 International Conference on Information Technology Applications in Biomedicine, ITAB (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-79951646075&partnerID=MN8TOARS.
    10.1109/ITAB.2010.5687653
  120. Lopes, P.; Oliveira, J.L.. "An extensible platform for variome data integration". Proceedings of the IEEE/EMBS Region 8 International Conference on Information Technology Applications in Biomedicine, ITAB (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-79951594849&partnerID=MN8TOARS.
    10.1109/ITAB.2010.5687784
  121. Matos, S.; Arrais, J.P.; Maia-Rodrigues, J.; Oliveira, J.L.. "Concept-based query expansion for retrieving gene related publications from MEDLINE". BMC Bioinformatics 11 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77951569837&partnerID=MN8TOARS.
    10.1186/1471-2105-11-212
  122. Ribeiro, L.S.; Costa, C.; Oliveira, J.L.. "A proxy of DICOM services". Progress in Biomedical Optics and Imaging - Proceedings of SPIE 7628 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77953435038&partnerID=MN8TOARS.
    10.1117/12.843572
  123. Arrais, J.P.; Fernandes, J.; Pereira, J.; Oliveira, J.L.. "GeneBrowser 2: An application to explore and identify common biological traits in a set of genes". BMC Bioinformatics 11 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77954675055&partnerID=MN8TOARS.
    10.1186/1471-2105-11-389
  124. Costa, C.; Freitas, F.; Pereira, M.; Silva, A.; Oliveira, J.L.. "Indexing and retrieving DICOM data in disperse and unstructured archives". International Journal of Computer Assisted Radiology and Surgery 4 1 (2009): 71-77. http://www.scopus.com/inward/record.url?eid=2-s2.0-63149146090&partnerID=MN8TOARS.
    10.1007/s11548-008-0269-7
  125. Arrais, J.P.; Rodrigues, J.G.L.M.; Oliveira, J.L.. "Improving literature searches in gene expression studies". Advances in Soft Computing 49 (2009): 74-82. http://www.scopus.com/inward/record.url?eid=2-s2.0-58149141893&partnerID=MN8TOARS.
    10.1007/978-3-540-85861-4_10
  126. Costa, C.; Oliveira, J.L.; Silva, A.; Ribeiro, V.G.; Ribeiro, J.. "Design, development, exploitation and assessment of a Cardiology Web PACS". Computer Methods and Programs in Biomedicine 93 3 (2009): 273-282. http://www.scopus.com/inward/record.url?eid=2-s2.0-59149083992&partnerID=MN8TOARS.
    10.1016/j.cmpb.2008.10.015
  127. Soares, A.R.; Pereira, P.M.; Santos, B.; Egas, C.; Gomes, A.C.; Arrais, J.; Oliveira, J.L.; Moura, G.R.; Santos, M.A.S.. "Parallel DNA pyrosequencing unveils new zebrafish microRNAs". BMC Genomics 10 (2009): http://www.scopus.com/inward/record.url?eid=2-s2.0-65949098165&partnerID=MN8TOARS.
    10.1186/1471-2164-10-195
  128. Arrais, J.; Pereira, J.E.; Fernandes, J.; Oliveira, J.L.. "GeNS: A biological data integration platform". World Academy of Science, Engineering and Technology 58 (2009): 850-855. http://www.scopus.com/inward/record.url?eid=2-s2.0-79954504232&partnerID=MN8TOARS.
  129. Matos, S.; Barreiro, A.; Oliveira, J.L.. "Syntactic parsing for bio-molecular event detection from scientific literature". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5816 LNAI (2009): 79-85. http://www.scopus.com/inward/record.url?eid=2-s2.0-71049149316&partnerID=MN8TOARS.
    10.1007/978-3-642-04686-5_7
  130. Gonçalves, P.; Oliveira, J.L.; Aguiar, R.L.. "An evaluation of network management protocols". 2009 IFIP/IEEE International Symposium on Integrated Network Management, IM 2009 (2009): 537-544. http://www.scopus.com/inward/record.url?eid=2-s2.0-70449344247&partnerID=MN8TOARS.
    10.1109/INM.2009.5188859
  131. Lopes, P.; Pinto, D.; Campos, D.; Oliveira, J.L.. "Arabella: A directed web crawler". KDIR 2009 - 1st International Conference on Knowledge Discovery and Information Retrieval, Proceedings (2009): 270-273. http://www.scopus.com/inward/record.url?eid=2-s2.0-77955347798&partnerID=MN8TOARS.
  132. Lousado, J.P.; Oliveira, J.L.; Moura, G.R.; Santos, M.A.S.. "Analysing the evolution of repetitive strands in genomes". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5518 LNCS PART 2 (2009): 1047-1054. http://www.scopus.com/inward/record.url?eid=2-s2.0-77952571423&partnerID=MN8TOARS.
    10.1007/978-3-642-02481-8_159
  133. Lopes, P.; Arrais, J.; Oliveira, J.L.. "Link integrator: A link-based data integration architecture". KDIR 2009 - 1st International Conference on Knowledge Discovery and Information Retrieval, Proceedings (2009): 274-277. http://www.scopus.com/inward/record.url?eid=2-s2.0-77955344708&partnerID=MN8TOARS.
  134. Gonçalves, P.; Azevedo, R.; Gomes, D.; Oliveira, J.L.; Aguiar, R.L.. "Evaluation of policy-based admission control mechanisms in NGN". 16th International Conference on Telecommunications, ICT 2009 (2009): 137-142. http://www.scopus.com/inward/record.url?eid=2-s2.0-77950688577&partnerID=MN8TOARS.
    10.1109/ICTEL.2009.5158633
  135. Gonçalves, P.; Figueira, C.; Azevedo, R.; Aguiar, R.; Oliveira, J.L.. "A graphical user interface for policy composition in CIM-SPL". 2009 International Conference on Ultra Modern Telecommunications and Workshops (2009): http://www.scopus.com/inward/record.url?eid=2-s2.0-74549142283&partnerID=MN8TOARS.
    10.1109/ICUMT.2009.5345411
  136. Lopes, P.; Arrais, J.; Oliveira, J.L.. "DynamicFlow: A client-side workflow management system". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5518 LNCS PART 2 (2009): 1101-1108. http://www.scopus.com/inward/record.url?eid=2-s2.0-77952575920&partnerID=MN8TOARS.
    10.1007/978-3-642-02481-8_167
  137. Gonçalves, P.; Oliveira, J.L.; Aguiar, R.; Azevedo, R.. "Managing QoS in a NGN using a PBM approach". 4th International Conference on Systems and Networks Communications, ICSNC 2009 (2009): 19-24. http://www.scopus.com/inward/record.url?eid=2-s2.0-72349097792&partnerID=MN8TOARS.
    10.1109/ICSNC.2009.91
  138. Fiorelli, A.I.; Coelho, G.H.B.; Oliveira Jr., J.L.; Aiello, V.D.; Benvenuti, L.A.; Santos, A.; Chi, A.; et al. "Endomyocardial Biopsy as Risk Factor in the Development of Tricuspid Insufficiency After Heart Transplantation". Transplantation Proceedings 41 3 (2009): 935-937. http://www.scopus.com/inward/record.url?eid=2-s2.0-64349115757&partnerID=MN8TOARS.
    10.1016/j.transproceed.2009.02.011
  139. Fiorelli, A.I.; Coelho, G.H.B.; Oliveira Jr., J.L.; Nascimento, C.N.G.; Vilas Boas, L.B.; Napolitano, C.F.C.; Bacal, F.; Bochi, E.A.; Stolf, N.A.G.. "Heart Transplantation in Arrhythmogenic Right Ventricular Dysplasia: Case Reports". Transplantation Proceedings 41 3 (2009): 962-964. http://www.scopus.com/inward/record.url?eid=2-s2.0-64349100837&partnerID=MN8TOARS.
    10.1016/j.transproceed.2009.02.010
  140. Almeida, P.; Carreto, L.; Oliveira, J.L.. "Design of microarray probes for detection of mutations". Proceedings - International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008 (2008): 137-142. http://www.scopus.com/inward/record.url?eid=2-s2.0-52249107591&partnerID=MN8TOARS.
    10.1109/BIOTECHNO.2008.39
  141. Pinheiro, M.; Oliveira, J.L.; Moura, G.R.; Santos, M.A.S.. "Studying the evolution of codon context in conserved gene sequences". Proceedings - International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008 (2008): 159-163. http://www.scopus.com/inward/record.url?eid=2-s2.0-52249094482&partnerID=MN8TOARS.
    10.1109/BIOTECHNO.2008.18
  142. Lousado, J.P.; Moura, G.R.; Santos, M.A.S.; Oliveira, J.L.. "Exploiting codon-triplets association for genome primary structure analysis". Proceedings - International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008 (2008): 155-158. http://www.scopus.com/inward/record.url?eid=2-s2.0-52249109635&partnerID=MN8TOARS.
    10.1109/BIOTECHNO.2008.21
  143. Arrais, J.P.; Carreto, L.; Santos, M.A.; Oliveira, J.L.. "A microarray information database". Proceedings - International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008 (2008): 170-175. http://www.scopus.com/inward/record.url?eid=2-s2.0-52449127769&partnerID=MN8TOARS.
    10.1109/BIOTECHNO.2008.22
  144. Santos, D.R.; Costa, C.M.A.; Silva, A.J.; Oliveira, J.L.; Neves, A.J.R.. "Alternative lossless compression algorithms in X-ray cardiac images". Proceedings of VIPIMAGE 2007 - 1st ECCOMAS Thematic Conference on Computational Vision and Medical Image Processing (2008): 143-146. http://www.scopus.com/inward/record.url?eid=2-s2.0-60749130789&partnerID=MN8TOARS.
  145. Lopes, P.; Arrais, J.; Oliveira, J.L.. "Dynamic Service integration using web-based workflows". Proceedings of the 10th International Conference on Information Integration and Web-based Applications and Services, iiWAS 2008 (2008): 622-625. http://www.scopus.com/inward/record.url?eid=2-s2.0-70349114124&partnerID=MN8TOARS.
    10.1145/1497308.1497426
  146. Polónia, D.F.; Da Silva, A.F.; Costa, C.M.; Oliveira, J.L.. "Brokerage mechanism proposal for teleradiology studies distribution". Progress in Biomedical Optics and Imaging - Proceedings of SPIE 6919 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-42949109165&partnerID=MN8TOARS.
    10.1117/12.770753
  147. Polónia, D.F.; Costa, C.M.A.; Silva, A.F.D.; Oliveira, J.L.. "PACS procurement planning and negotiation strategies for regional health institutions in the National Health Service of an EU country". Computer-Assisted Radiology and Surgery 2 1 SUPPL. (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-34250632290&partnerID=MN8TOARS.
    10.1007/s11548-007-0103-7
  148. Moura, G.; Pinheiro, M.; Freitas, A.V.; Oliveira, J.L.; Santos, M.A.S.. "Computational and statistical methodologies for ORFeome primary structure analysis". Methods in Molecular Biology 395 (2007): 449-462. http://www.scopus.com/inward/record.url?eid=2-s2.0-36549060956&partnerID=MN8TOARS.
    10.1385/1-59745-514-8:449
  149. Costa, C.; Silva, A.; Oliveira, J.L.. "Current perspectives on PACS and a cardiology case study". Studies in Computational Intelligence 65 (2007): 79-108. http://www.scopus.com/inward/record.url?eid=2-s2.0-34250214449&partnerID=MN8TOARS.
    10.1007/978-3-540-72375-2_5
  150. Moura, G.; Pinheiro, M.; Arrais, J.; Gomes, A.C.; Carreto, L.; Freitas, A.; Oliveira, J.L.; Santos, M.A.S.. "Large scale comparative codon-pair context analysis unveils general rules that fine-tune evolution of mRNA primary structure". PLoS ONE 2 9 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-39449087192&partnerID=MN8TOARS.
    10.1371/journal.pone.0000847
  151. Moura, G.R.; Lousado, J.P.; Pinheiro, M.; Carreto, L.; Silva, R.M.; Oliveira, J.L.; Santos, M.A.S.. "Codon-triplet context unveils unique features of the Candida albicans protein coding genome". BMC Genomics 8 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-39149103111&partnerID=MN8TOARS.
    10.1186/1471-2164-8-444
  152. Pólonia, D.F.; Costa, C.M.A.; Oliveira, J.L.. "A model to optimize the use of imaging equipment and human skills scattered in very large geographical areas". ICEIS 2007 - 9th International Conference on Enterprise Information Systems, Proceedings SAIC (2007): 208-212. http://www.scopus.com/inward/record.url?eid=2-s2.0-67650240159&partnerID=MN8TOARS.
  153. Costa, C.; Oliveira, J.L.; Silva, A.; Gama, V.; Ribeiro, J.. "Enhanced PACS to support demanding telemedicine and telework scenarios". Computer-Assisted Radiology and Surgery 2 1 SUPPL. (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-34250646524&partnerID=MN8TOARS.
    10.1007/s11548-007-0104-6
  154. Santos, Manuel; Arrais, Joel; Santos, Bruno; Fernandes, João; Carreto, Laura; Oliveira, José Luis. "GeneBrowser: an approach for integration and functional classification of genomic data". Journal of Integrative Bioinformatics 4 3 (2007): http://dx.doi.org/10.1515/jib-2007-82.
    Published • https://doi.org/10.1515/jib-2007-82
  155. Costa, C.M.A.; Silva, A.; Oliveira, J.L.; Ribeiro, V.G.; Ribeiro, J.. "A demanding Web-based PACS supported by Web Services technology". Progress in Biomedical Optics and Imaging - Proceedings of SPIE 6145 (2006): http://www.scopus.com/inward/record.url?eid=2-s2.0-33745410012&partnerID=MN8TOARS.
    10.1117/12.653935
  156. Pinheiro, M.; Afreixo, V.; Moura, G.; Freitas, A.; Santos, M.A.S.; Oliveira, J.L.. "Statistical, computational and visualization methodologies to unveil gene primary structure features". Methods of Information in Medicine 45 2 (2006): 163-168. http://www.scopus.com/inward/record.url?eid=2-s2.0-33646827361&partnerID=MN8TOARS.
  157. Dias, G.S.; Oliveira, J.L.; Vicente, J.; Martin-Sanchez, F.. "Integrating medical and genomic data: A sucessful example for rare diseases". Studies in Health Technology and Informatics 124 (2006): 125-130. http://www.scopus.com/inward/record.url?eid=2-s2.0-39049181687&partnerID=MN8TOARS.
  158. Polónia, D.F.; Arrais, J.; Oliveira, J.L.. "A prospective study on the integration of microarray data in HIS/EPR". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 4345 LNBI (2006): 231-239. http://www.scopus.com/inward/record.url?eid=2-s2.0-34547470092&partnerID=MN8TOARS.
  159. Oliveira, I.C.; Oliveira, J.L.; Sanchez, J.P.; López-Alonso, V.; Martin-Sanchez, F.; Maojo, V.; Sousa Pereira, A.. "Grid requirements for the integration of biomedical information resources for health applications". Methods of Information in Medicine 44 2 (2005): 161-167. http://www.scopus.com/inward/record.url?eid=2-s2.0-20344383766&partnerID=MN8TOARS.
  160. Veiga, H.; Pinho, T.; Oliveira, J.L.; Valadas, R.; Salvador, P.; Nogueira, A.. "Active traffic monitoring for heterogeneous environments". Lecture Notes in Computer Science 3420 I (2005): 603-610. http://www.scopus.com/inward/record.url?eid=2-s2.0-24644456982&partnerID=MN8TOARS.
  161. Lopes, R.; Raimundo, N.; Varanda, M.; Oliveira, J.; Roque, V.. "Executable graphics for PBNM". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 3751 LNCS (2005): 108-117. http://www.scopus.com/inward/record.url?eid=2-s2.0-33744787101&partnerID=MN8TOARS.
    10.1007/11567486_12
  162. Oliveira, J.L.; Maojo, V.; Martín-Sánchez, F.; Pereira, A.S.. "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics): Preface". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 3745 LNBI (2005): http://www.scopus.com/inward/record.url?eid=2-s2.0-33745290245&partnerID=MN8TOARS.
  163. Dias, G.; Oliveira, J.L.; Vicente, F.-J.; Martín-Sánchez, F.. "Integration of genetic and medical information through a web crawler system". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 3745 LNBI (2005): 78-88. http://www.scopus.com/inward/record.url?eid=2-s2.0-33745303774&partnerID=MN8TOARS.
    10.1007/11573067_9
  164. Moura, G.; Pinheiro, M.; Silva, R.; Miranda, I.; Afreixo, V.; Dias, G.; Freitas, A.; Oliveira, J.L.; Santos, M.A.. "Comparative context analysis of codon pairs on an ORFeome scale.". Genome biology 6 3 (2005): http://www.scopus.com/inward/record.url?eid=2-s2.0-33644889434&partnerID=MN8TOARS.
  165. Costa, C.; Oliveira, J.L.; Silva, A.; Ribeiro, V.G.; Ribeiro, J.. "Data management and visualization issues in a fully digital echocardiography laboratory". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 3745 LNBI (2005): 13-21. http://www.scopus.com/inward/record.url?eid=2-s2.0-33745324967&partnerID=MN8TOARS.
  166. Lage, A.-L.; Martins, J.; Oliveira, J.; Cunha, W.. "A quality of service approach for managing tele-medicine multimedia applications requirements". 2004 IEEE Workshop on IP Operations and Management Proceedings, IPOM 2004: Self-Measurement and Self-Management of IP Networks and Services (2005): 186-190. http://www.scopus.com/inward/record.url?eid=2-s2.0-28844464043&partnerID=MN8TOARS.
  167. Polónia, D.F.; Costa, C.; Oliveira, J.L.. "Architecture evaluation for the implementation of a regional integrated electronic health record". Studies in Health Technology and Informatics 116 (2005): 379-384. http://www.scopus.com/inward/record.url?eid=2-s2.0-84886915633&partnerID=MN8TOARS.
  168. Gonçalves, P.; Oliveira, J.L.; Aguiar, R.L.. "A WBEM based solution for a 4G network integrated management". Proceedings of the Joint International Conference on Autonomic and Autonomous Systems and International Conference on Networking and Services, ICAS/ICNS 2005 2005 (2005): http://www.scopus.com/inward/record.url?eid=2-s2.0-33845321730&partnerID=MN8TOARS.
    10.1109/ICAS-ICNS.2005.14
  169. Oliveira, J.L.; Gonçalves, P.; Dziunikowski, W.; Wszolek, J.; Rasmussen, S.; Lopes, R.P.; Roque, V.. "Policy-based network management in an integrated mobile network". Proceedings - Advanced Industrial Conference on Telecommunications/Service Assurance with Partial and Intermittent Resources Conference/E-Learning on Telecommunications Workshop AICT/SAPIR/ELETE 2005 2005 (2005): 59-64. http://www.scopus.com/inward/record.url?eid=2-s2.0-33750972038&partnerID=MN8TOARS.
    10.1109/AICT.2005.74
  170. Costa, C.; Oliveira, J.L.; Silva, A.. "E-services in mission-critical organizations: Identification enforcement". ICEIS 2004 - Proceedings of the Sixth International Conference on Enterprise Information Systems (2004): 389-396. http://www.scopus.com/inward/record.url?eid=2-s2.0-8444230475&partnerID=MN8TOARS.
  171. Polónia, D.; Oliveira, I.C.; Oliveira, J.L.. "A business process model for public health information systems: A governmental perspective". ICEIS 2004 - Proceedings of the Sixth International Conference on Enterprise Information Systems (2004): 573-576. http://www.scopus.com/inward/record.url?eid=2-s2.0-8444222741&partnerID=MN8TOARS.
  172. Roque, V.; Oliveira, J.L.; Lopes, R.P.. "Solving transactions control in current management frameworks". ICEIS 2004 - Proceedings of the Sixth International Conference on Enterprise Information Systems (2004): 523-526. http://www.scopus.com/inward/record.url?eid=2-s2.0-8444246335&partnerID=MN8TOARS.
  173. Pinheiro, M.; Oliveira, J.L.; Santos, M.A.S.; Rocha, H.; Cardoso, M.L.; Vilarinho, L.. "NeoScreen: A software application for MS/MS newborn screening analysis". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 3337 (2004): 450-457. http://www.scopus.com/inward/record.url?eid=2-s2.0-35048821027&partnerID=MN8TOARS.
  174. Oliveira, J.L.; Dias, G.; Oliveira, I.; Rocha, P.; Hermosilla, I.; Vicente, J.; Spiteri, I.; Martin-Sánchez, F.; Pereira, A.S.. "Diseasecard: A web-based tool for the collaborative integration of genetic and medical information". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 3337 (2004): 409-417. http://www.scopus.com/inward/record.url?eid=2-s2.0-35048821032&partnerID=MN8TOARS.
  175. Costa, C.M.A.; Silva, A.; Oliveira, J.L.; Ribeiro, V.G.; Ribeiro, J.. "Himage PACS: A new approach to storage, integration and distribution of cardiologie images". Progress in Biomedical Optics and Imaging - Proceedings of SPIE 5 25 (2004): 277-287. http://www.scopus.com/inward/record.url?eid=2-s2.0-12144281711&partnerID=MN8TOARS.
    10.1117/12.534135
  176. Lopes, R.P.; Oliveira, J.L.. "A mobile agent manager". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2881 (2003): 220-229. http://www.scopus.com/inward/record.url?eid=2-s2.0-0142187742&partnerID=MN8TOARS.
  177. Costa, C.M.A.; Oliveira, J.L.; Silva, A.; Ribeiro, V.G.. "A New Concept for an IntegratedHealthcare access model". Studies in Health Technology and Informatics 95 (2003): 101-106. http://www.scopus.com/inward/record.url?eid=2-s2.0-8444232153&partnerID=MN8TOARS.
    10.3233/978-1-60750-939-4-101
  178. Costa, C.; Oliveira, J.L.; Silva, A.. "Critical information systems authentication based on PKC and biometrics". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2722 (2003): 543-544. http://www.scopus.com/inward/record.url?eid=2-s2.0-35248824578&partnerID=MN8TOARS.
  179. Costa, C.; Oliveira, J.L.; Silva, A.. "Electronic patient record virtually unique based on a crypto Smart Card". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2722 (2003): 545-546. http://www.scopus.com/inward/record.url?eid=2-s2.0-35248872485&partnerID=MN8TOARS.
  180. Oliveira, Jose Luis; Aguiar, Rui. "Network and desktop management convergence". Proceedings of the Hawaii International Conference on System Sciences (2000): http://www.scopus.com/inward/record.url?eid=2-s2.0-0033884194&partnerID=MN8TOARS.
  181. Lopes, Rui Pedro; Oliveira, Jose Luis. "On the use of mobility in distributed network management". Proceedings of the Hawaii International Conference on System Sciences (2000): http://www.scopus.com/inward/record.url?eid=2-s2.0-0033900575&partnerID=MN8TOARS.
  182. da Rocha, Nelson Pacheco; Oliveira, Jose Luis; Pereira, Leonor Moniz; Saragoca, Elisabete. "Enabling computer applications in residential environments". Proceedings - IEEE Convention of Electrical & Electronics Engineers in Israel (1996): 291-294. http://www.scopus.com/inward/record.url?eid=2-s2.0-0030420403&partnerID=MN8TOARS.
  183. Oliveira, Jose Luis; Martins, Joaquim Arnaldo. "Methodology to represent logical network topology information". IEEE Symposium Record on Network Operations and Management Symposium 1 (1994): 196-206. http://www.scopus.com/inward/record.url?eid=2-s2.0-0028016969&partnerID=MN8TOARS.
  184. Oliveira, Jose Luis; Martins, Joaquim Arnaldo. "Management architecture based on network topology information". Journal of Network and Systems Management 2 4 (1994): 401-414. http://www.scopus.com/inward/record.url?eid=2-s2.0-0028697709&partnerID=MN8TOARS.
    10.1007/BF02283189
  185. Pinto, Joaquim Sousa; Oliveira, JoseLuis; Martins, Joaquim Arnaldo. "PC workstation for Ethernet monitoring and management". (1991): 568-570. http://www.scopus.com/inward/record.url?eid=2-s2.0-0026403147&partnerID=MN8TOARS.

Other

Other output
  1. Passive Sensing of Health Outcomes Through Smartphones: Systematic Review of Current Solutions and Possible Limitations (Preprint). 2018. Alina Trifan; Maryse Oliveira; José Luís Oliveira. https://doi.org/10.2196/preprints.12649.
    10.2196/preprints.12649
Activities

Supervision

Thesis Title
Role
Degree Subject (Type)
Institution / Organization
2019/09/01 - Current Collaborative Research Framework in Digital Pathology
Supervisor
UA-PDEINF (PhD)
Universidade de Aveiro, Portugal
2019/09/01 - 2024 Semi-Supervised and Interpretable Deep Learning Architectures to Predict Drug-Target Binding Affinity
Co-supervisor
UC-PDCTI (PhD)
Universidade de Coimbra, Portugal
2018/09/01 - 2023/03/23 Querying and Visualization of Semantic Data
Supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2019/09/01 - 2023/03/20 Enriching information extraction pipelines in standardised health databases
Supervisor
ICT (Univ. Corunha) (PhD)
Universidade de Aveiro, Portugal
2015/09/01 - 2022/05/27 Study of NAPRT Gene Expression, Function and Regulation in Cancer and Non-Pathological Conditions
Co-supervisor
Dout. Biomedicina (UA) (PhD)
Universidade de Aveiro, Portugal
2013/09/01 - 2019/04/10 Prediction And Analysis Of Biological Networks Structure And Dynamics
Co-supervisor
UA-PDEINF (PhD)
Universidade de Aveiro, Portugal
2013/09/01 - 2018/03/14 Semantic Knowledge Discovery for Neuropathologies
Supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2012/09/01 - 2017/04/12 Computational prediction of Inter-Species Protein-Protein Interactions
Co-supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2013/09 - 2017/03/29 Sistemas Interactivos e Distribuídos para Telemedicina
Co-supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2011/09/01 - 2015/11/13 A federated architecture for biomedical data integration
Co-supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2010/09/01 - 2015/01/09 Machine Learning and Probabilistic Models for Biomedical Knowledge Engineering
Supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2009/09/01 - 2014/02/28 Term expansion methodologies in biomedical information retrieval
Co-supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2009/09/01 - 2013/09/25 Electronic Health Records for Mobile Citizens
Supervisor
MAP-i (PhD)
Universidade de Aveiro, Portugal
2008/09/01 - 2012/10/01 Service Composition in Biomedical Applications
Supervisor
UA-PDEINF (PhD)
Universidade de Aveiro, Portugal
2008/09/01 - 2012/05/30 Do Proteoma Salivar ao Oraloma
Co-supervisor
Ciências da Saúde (PhD)
Universidade Católica Portuguesa, Portugal
2005/09/01 - 2011/05/09 Mercado Electrónico para Serviços de Teleradiologia
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal
2005/09/01 - 2011/04/11 Análise de tripletos e de repetições em estruturas primárias de DNA
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal
2005/09/01 - 2010/05/06 Computational systems for the study of the primary structure and redesign of genes
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal
2005/09/01 - 2010/03/18 Sistemas de Informação para Microarrays e sua Utilização em Ambientes Clínicos
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal
2005/09/01 - 2010/02/22 Gestão de Qualidade de Serviço baseada em Políticas
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal
2000/09/01 - 2004/11/03 A security dynamic model for healthcare information systems
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal
1999/09/01 - 2003/05/07 Distributed Management with SNMP
Supervisor
Dout. Eletrotecnia (UA) (PhD)
Universidade de Aveiro, Portugal