| 2022 | PACBB | Exploring Xylella fastidiosa's Metabolic Traits Using a GSM Model of the Phytopathogenic Bacterium. | Alexandre Oliveira, Emanuel Cunha, Miguel Silva, Cristiana Faria, Oscar Dias |
| 2021 | PACBB | Towards a Multivariate Analysis of Genome-Scale Metabolic Models Derived from the BiGG Models Database. | Alexandre Oliveira, Emanuel Cunha, Fernando Cruz, Joo Capela, Joo Carlos Sequeira, Marta Sampaio, Oscar Dias |
| 2020 | PACBB | Towards the Reconstruction of the Genome-Scale Metabolic Model of Lactobacillus acidophilus La-14. | Emanuel Cunha, Ahmad A. Zeidan, Oscar Dias |
| 2020 | PACBB | Reconciliation of Regulatory Data: The Regulatory Networks of Escherichia coli and Bacillus subtilis. | Diogo Lima, Fernando Cruz, Miguel Rocha, Oscar Dias |
| 2019 | PACBB | Towards the Reconstruction of Integrated Genome-Scale Models of Metabolism and Gene Expression. | Fernando Cruz, Diogo Lima, Jos P. Faria, Miguel Rocha, Oscar Dias |
| 2019 | PACBB | Predicting Promoters in Phage Genomes Using Machine Learning Models. | Marta Sampaio, Miguel Rocha, Hugo Oliveira, Oscar Dias |
| 2014 | PACBB | Metagenomic Analysis of the Saliva Microbiome with Merlin. | Pedro Barbosa, Oscar Dias, Joel P. Arrais, Miguel Rocha |