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• João Almeida, Leonardo Coelho, José Luís Oliveira. BIcenter: A collaborative Web ETL solution based on a reflective software approach. SoftwareX, vol. 16, p. 100892, December 2021
• Sara Pereira, Olga Fajarda, Sérgio Matos, José Luís Oliveira, Raquel Silva. NAPRT Expression Regulation Mechanisms: Novel Functions Predicted by a Bioinformatics Approach. Genes, vol. 12, no. 12, p. 2022, December 2021 [IF 2018: 3.331 (Q2, 61/174)]
• João Almeida, Luís Bastião Silva, Isabelle Bos, Pieter Jelle Visser, José Luís Oliveira. A methodology for cohort harmonisation in multicentre clinical research. Informatics in Medicine Unlocked, p. 100760, October 2021
• João Almeida, João Figueira Silva, Sérgio Matos, José Luís Oliveira. A two-stage workflow to extract and harmonize drug mentions from clinical notes into observational databases. Journal of Biomedical Informatics, vol. 120, p. 103849, August 2021 [IF 2018: 2.950 (Q2, 33/106)]
• João Almeida, Diogo Pratas, José Luís Oliveira. A semi-automatic methodology for analysing distributed and private biobanks. Computers in Biology and Medicine, vol. 130, p. 104180, January 2021 [IF 2018: 2.895]
• Arnaldo Pereira, Rui Pedro Lopes, José Luís Oliveira. SCALEUS-FD: A FAIR Data Tool for Biomedical Applications. BioMed Research International, August 2020
• João Almeida, Armando J. Pinho, José Luís Oliveira, Olga Fajarda, Diogo Pratas. GTO: A toolkit to unify pipelines in genomic and proteomic research. SoftwareX, vol. 12, p. 100535, July 2020
• Olga Fajarda, Sara Pereira, Raquel Silva, José Luís Oliveira. Merging microarray studies to identify a common gene expression signature to several structural heart diseases. BioData Mining, vol. 13, no. 8, p. 1-20, July 2020
• 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, vol. 7, no. 8, p. e12649, August 2019 [IF 2018: 4.301 (Q1, 2/26)]
• João 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, vol. 19, no. 1, p. 121, July 2019 [IF 2018: 2.067 (Q3, 15/26)]
• José Luís Oliveira, Alina Trifan, Luís Bastião Silva. EMIF Catalogue: A collaborative platform for sharing and reusing biomedical data. International Journal of Medical Informatics, vol. 126, p. 35-45, June 2019 [IF 2018: 2.731 (Q2, 57/155)]
• Alina Trifan, José Luís Oliveira. Patient data discovery platforms as enablers of biomedical and translational research: a systematic review. Journal of Biomedical Informatics, vol. 93, p. 103154, May 2019 [IF 2018: 2.950 (Q2, 33/106)]
• Luís Bastião Silva, Alina Trifan, José Luís Oliveira. MONTRA: An agile architecture for data publishing and discovery. Computer Methods and Programs in Biomedicine, vol. 160, p. 33-42, April 2018 [IF 2018: 3.424 (Q1, 15/105)]
• Pedro Sernadela, Lorena González-Castro, José Luís Oliveira. SCALEUS: Semantic Web Services Integration for Biomedical Applications. Journal of Medical Systems, vol. 41, no. 4, April 2017 [IF 2017: 2.098 (Q2, 46/94)] [IF 2018: 2.415 (Q2, 12/26)]
• Tiago Godinho, Carlos Costa, José Luís Oliveira. Intelligent Generator of Big Data Medical Imaging Repositories. IET Software, vol. 11, no. 3, p. 100, February 2017 [IF 2018: 0.695 (Q4, 95/107)]
• Edgar Coelho, Joel Arrais, José Luís Oliveira. Computational Discovery of Putative Leads for Drug Repositioning through Drug-Target Interaction Prediction. PLoS Computational Biology, vol. 12, no. 11, p. e1005219, November 2016 [IF 2016: 4.542 (Q1, 4/57)] [IF 2018: 4.428 (Q1, 5/59)]
• Sun Kim, Rezarta Islamaj Doğan, Andrew Chatr-Aryamontri, Christie S. Chang, Rose Oughtred, Jennifer Rust, Riza Batista-Navarro, Jacob Carter, Sophia Ananiadou, Sérgio Matos, André Santos, David Campos, José Luís Oliveira, Onkar Singh, Jitendra Jonnagaddala, Hong-Jie Dai, Emily Chia-Yu Su, Yung-Chun Chang, Yu-Chen Su, Chun-Han Chu, Chien Chin Chen, Wen-Lian Hsu, Yifan Peng, Cecilia Arighi, Cathy H. Wu, K. Vijay-Shanker, Ferhat Aydın, Zehra Melce Hüsünbeyi, Arzucan Özgür, Soo-Yong Shin, Dongseop Kwon, Kara Dolinski, Mike Tyers, W. John Wilbur, and Donald C. Comeau. BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID. Database, vol. 2016, no. baw121, September 2016 [IF 2016: 3.290 (Q1, 8/57)] [IF 2018: 3.683 (Q1, 7/59)]
• Sérgio Matos, David Campos, Renato Pinho, Raquel Silva, Matthew Mort, David N. Cooper, José Luís Oliveira. Mining clinical attributes of genomic variants through assisted literature curation in Egas. Database, vol. 2016, June 2016 [IF 2016: 3.290 (Q1, 8/57)] [IF 2018: 3.683 (Q1, 7/59)]
• John Arevalo, Fabio A. González, Raúl Ramos-Póllan, José Luís Oliveira, Miguel Guevara. Representation learning for mammography mass lesion classification with convolutional neural networks. Computer Methods and Programs in Biomedicine, p. 248-257, April 2016 [IF 2016: 2.503 (Q1, 21/104)] [IF 2018: 3.424 (Q1, 15/105)]
• Eriksson Monteiro, Carlos Costa, José Luís Oliveira. A Cloud Architecture for Teleradiology-as-a-Service. Methods of Information in Medicine, vol. 55, no. 3, p. 203-214, March 2016 [IF 2016: 1.772, 1.772 (Q3, Q3, 78/146, 78/146)]