| The YEASTRACT database: a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae MC Teixeira, P Monteiro, P Jain, S Tenreiro, AR Fernandes, NP Mira, ... Nucleic acids research 34 (suppl_1), D446-D451, 2006 | 628 | 2006 |
| Current tools for the identification of miRNA genes and their targets ND Mendes, AT Freitas, MF Sagot Nucleic acids research 37 (8), 2419-2433, 2009 | 299 | 2009 |
| The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae MC Teixeira, PT Monteiro, JF Guerreiro, JP Gonçalves, NP Mira, ... Nucleic acids research 42 (D1), D161-D166, 2014 | 283 | 2014 |
| YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface D Abdulrehman, PT Monteiro, MC Teixeira, NP Mira, AB Lourenco, ... Nucleic acids research 39 (suppl_1), D136-D140, 2010 | 240 | 2010 |
| YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae PT Monteiro, ND Mendes, MC Teixeira, S d’Orey, S Tenreiro, NP Mira, ... Nucleic acids research 36 (suppl_1), D132-D136, 2007 | 199 | 2007 |
| Using machine learning to improve the prediction of functional outcome in ischemic stroke patients M Monteiro, AC Fonseca, AT Freitas, TP e Melo, AP Francisco, JM Ferro, ... IEEE/ACM transactions on computational biology and bioinformatics 15 (6 …, 2018 | 143 | 2018 |
| Metagenome enrichment approach used for selection of oil-degrading bacteria consortia for drill cutting residue bioremediation AB Guerra, JS Oliveira, RCB Silva-Portela, W Araújo, AC Carlos, ... Environmental Pollution 235, 869-880, 2018 | 132 | 2018 |
| Evaluation of reduced susceptibility to quaternary ammonium compounds and bisbiguanides in clinical isolates and laboratory-generated mutants of Staphylococcus aureus L Furi, ML Ciusa, D Knight, V Di Lorenzo, N Tocci, D Cirasola, L Aragones, ... Antimicrobial agents and chemotherapy 57 (8), 3488-3497, 2013 | 130 | 2013 |
| A novel resistance mechanism to triclosan that suggests horizontal gene transfer and demonstrates a potential selective pressure for reduced biocide susceptibility in clinical … ML Ciusa, L Furi, D Knight, F Decorosi, M Fondi, C Raggi, JR Coelho, ... International Journal of Antimicrobial Agents, 2012 | 123 | 2012 |
| Temporal logic patterns for querying dynamic models of cellular interaction networks PT Monteiro, D Ropers, R Mateescu, AT Freitas, H De Jong Bioinformatics 24 (16), i227-i233, 2008 | 117 | 2008 |
| The semantic web in translational medicine: current applications and future directions CM Machado, D Rebholz-Schuhmann, AT Freitas, FM Couto Briefings in bioinformatics 16 (1), 89-103, 2015 | 79 | 2015 |
| An efficient algorithm for the identification of structured motifs in DNA promoter sequences AM Carvalho, AT Freitas, AL Oliveira, MF Sagot IEEE/ACM Transactions on Computational Biology and Bioinformatics 3 (2), 126-140, 2006 | 77 | 2006 |
| NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language LP Coelho, R Alves, P Monteiro, J Huerta-Cepas, AT Freitas, P Bork Microbiome 7, 1-10, 2019 | 67 | 2019 |
| Advancing Eucalyptus genomics: identification and sequencing of lignin biosynthesis genes from deep-coverage BAC libraries JAP Paiva, E Prat, S Vautrin, MD Santos, H San-Clemente, ... BMC genomics 12, 1-13, 2011 | 67 | 2011 |
| A highly scalable algorithm for the extraction of cis-regulatory regions AM Carvalho, AT Freitas, AL Oliveira, MF Sagot Proceedings Of The 3rd Asia-Pacific Bioinformatics Conference, 273-282, 2005 | 66 | 2005 |
| CSA: an efficient algorithm to improve circular DNA multiple alignment F Fernandes, L Pereira, AT Freitas BMC bioinformatics 10, 1-13, 2009 | 57 | 2009 |
| Vitamin D-related polymorphisms and vitamin D levels as risk biomarkers of COVID-19 disease severity AT Freitas, C Calhau, G Antunes, B Araújo, M Bandeira, S Barreira, ... Scientific reports 11 (1), 20837, 2021 | 56* | 2021 |
| MUSA: a parameter free algorithm for the identification of biologically significant motifs ND Mendes, AC Casimiro, PM Santos, I Sa-Correia, AL Oliveira, ... Bioinformatics 22 (24), 2996-3002, 2006 | 46 | 2006 |
| BioSurfDB: knowledge and algorithms to support biosurfactants and biodegradation studies JS Oliveira, W Araujo, AI Lopes Sales, A Brito Guerra, SC Silva Araújo, ... Database 2015, bav033, 2015 | 45 | 2015 |
| The use of machine learning methodologies to analyse antibiotic and biocide susceptibility in Staphylococcus aureus JR Coelho, JA Carriço, D Knight, JL Martínez, I Morrissey, MR Oggioni, ... PLoS One 8 (2), e55582, 2013 | 45 | 2013 |
Arlindo L OliveiraDistinguished Professor, Instituto Superior Técnico / INESC-IDVerified email at tecnico.ulisboa.pt
