| MEWpy: a computational strain optimization workbench in Python V Pereira, F Cruz, M Rocha Bioinformatics 37 (16), 2494-2496, 2021 | 29 | 2021 |
| A LysM Domain Intervenes in Sequential Protein-Protein and Protein-Peptidoglycan Interactions Important for Spore Coat Assembly in Bacillus subtilis FC Pereira, F Nunes, F Cruz, C Fernandes, AL Isidro, D Lousa, ... Journal of Bacteriology 201 (4), 10.1128/jb. 00642-18, 2019 | 25 | 2019 |
| merlin, an improved framework for the reconstruction of high-quality genome-scale metabolic models J Capela, D Lagoa, R Rodrigues, E Cunha, F Cruz, A Barbosa, J Bastos, ... Nucleic Acids Research 50 (11), 6052-6066, 2022 | 22 | 2022 |
| A review of methods for the reconstruction and analysis of integrated genome-scale models of metabolism and regulation F Cruz, JP Faria, M Rocha, I Rocha, O Dias Biochemical Society Transactions 48 (5), 1889-1903, 2020 | 20 | 2020 |
| merlin v4.0: an updated platform for the reconstruction of high-quality genome-scale metabolic models J Capela, D Lagoa, R Rodrigues, E Cunha, F Cruz, A Barbosa, J Bastos, ... bioRxiv, 2021.02. 24.432752, 2021 | 9 | 2021 |
| BioISO: an objective-oriented application for assisting the curation of genome-scale metabolic models F Cruz, J Capela, EC Ferreira, M Rocha, O Dias IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2024 | 8 | 2024 |
| SamPler – a novel method for selecting parameters for gene functional annotation routines F Cruz, D Lagoa, J Mendes, I Rocha, EC Ferreira, M Rocha, O Dias BMC bioinformatics 20, 1-11, 2019 | 5 | 2019 |
| Towards a multivariate analysis of genome-scale metabolic models derived from the BiGG models database A Oliveira, E Cunha, F Cruz, J Capela, J Sequeira, M Sampaio, O Dias Practical Applications of Computational Biology & Bioinformatics, 15th …, 2022 | 2 | 2022 |
| Systematic assessment of template-based genome-scale metabolic models created with the BiGG Integration Tool A Oliveira, E Cunha, F Cruz, J Capela, JC Sequeira, M Sampaio, ... Journal of Integrative Bioinformatics 19 (3), 20220014, 2022 | 1 | 2022 |
| Blueprint: Documenting the complexity of metabolic regulation by reconstruction of integrated metabolic-regulatory models FJP da Cruz PQDT-Global, 2022 | | 2022 |
| Reconciliation of Regulatory Data: The Regulatory Networks of Escherichia coli and Bacillus subtilis D Lima, F Cruz, M Rocha, O Dias Practical Applications of Computational Biology & Bioinformatics, 14th …, 2021 | | 2021 |
| merlin v4: an updated platform for reconstructing genome-scale metabolic models DB Lima, DRS Lagoa, FJP Cruz, J Bastos, J Capela, EC Ferreira, ... | | 2020 |
| Towards the Reconstruction of Integrated Genome-Scale Models of Metabolism and Gene Expression F Cruz, D Lima, JP Faria, M Rocha, O Dias Practical Applications of Computational Biology and Bioinformatics, 13th …, 2020 | | 2020 |
| Genome-scale Metabolic Network Reconstruction of the Dairy Bacterium Streptococcus Thermophilus FJP da Cruz PQDT-Global, 2017 | | 2017 |
Miguel RochaAssociate Professor, Dept. Informatics and Centre Biological Engineering, Universidade do MinhoVerified email at di.uminho.pt