| 2025 | EPIA | Convolutional Spiking Neural Networks with Molecular Fingerprints for Drug Discovery. | Dinu Bosi, Luis H. M. Torres, Joel P. Arrais, Bernardete Ribeiro |
| 2025 | IBPRIA | A Novel Deep Learning Framework for Predicting Antimicrobial Peptide Activity Using ProtBert and Neural Networks. | Maryam Abbasi, Vernica Vasconcelos, Edgar M. C. O. S. Vicente, Ana L. M. Santos, Joel P. Arrais |
| 2023 | ICASSP | On the Quantization of Recurrent Neural Networks for Smiles Generation. | Adriano Durao, Joel P. Arrais, Bernardete Ribeiro, Gabriel Falcao |
| 2023 | PACBB | The Impact of Schizophrenia Misdiagnosis Rates on Machine Learning Models Performance. | Daniel Martins, Conceio Egas, Joel P. Arrais |
| 2022 | CBMS | Deep Model for Anticancer Drug Response through Genomic Profiles and Compound Structures. | Filipa G. Carvalho, Maryam Abbasi, Bernardete Ribeiro, Joel P. Arrais |
| 2021 | CBMS | Optimizing Recurrent Neural Network Architectures for De Novo Drug Design. | Beatriz P. Santos, Maryam Abbasi, Tiago Pereira, Bernardete Ribeiro, Joel P. Arrais |
| 2021 | CBMS | Analysing Games for Health through Users' Opinion Mining. | Renato Santos, Joel P. Arrais, Paula Alexandra Silva |
| 2021 | PACBB | Computational Methods for the Identification of Genetic Variants in Complex Diseases. | Dbora Antunes, Daniel Martins, Fernanda Correia, Miguel Rocha, Joel P. Arrais |
| 2020 | IV | Exploring Time-Series Through Force-Directed Timelines. | Antnio Cruz, Joel P. Arrais, Penousal Machado |
| 2019 | ICANN | Deep Neural Network Architecture for Drug-Target Interaction Prediction. | Nelson R. C. Monteiro, Bernardete Ribeiro, Joel P. Arrais |
| 2018 | IV | Interactive Network Visualization of Gene Expression Time-Series Data. | Antnio Cruz, Joel P. Arrais, Penousal Machado |
| 2017 | GECCO | On the role of aesthetics in genetic algorithms applied to graph drawing. | Evgheni Polisciuc, Antnio Cruz, Penousal Machado, Joel P. Arrais |
| 2016 | CBMS | Ensemble-Based Methodology for the Prediction of Drug-Target Interactions. | Edgar D. Coelho, Joel P. Arrais, Jos Lus Oliveira |
| 2014 | PACBB | Metagenomic Analysis of the Saliva Microbiome with Merlin. | Pedro Barbosa, Oscar Dias, Joel P. Arrais, Miguel Rocha |
| 2013 | PACBB | Quantitative Characterization of Protein Networks of the Oral Cavity. | Fernanda Correia Barbosa, Joel P. Arrais, Jos Lus Oliveira |