A parallel algorithm for the extraction of structured motifs. - Alexandra M. Carvalho; Arlindo L. Oliveira; Ana T. Freitas; Marie-France Sagot (SAC, 2004)

Efficient Extraction of Structured Motifs Using Box-Links. - Alexandra M. Carvalho; Ana T. Freitas; Arlindo L. Oliveira; Marie-France Sagot (SPIRE, 2004)

A highly scalable algorithm for the extraction of CIS-regulatory regions. - Alexandra M. Carvalho; Ana T. Freitas; Arlindo L. Oliveira; Marie-France Sagot (APBC, 2005)

RISOTTO: Fast Extraction of Motifs with Mismatches. - Nadia Pisanti; Alexandra M. Carvalho; Laurent Marsan; Marie-France Sagot (LATIN, 2006)

An Efficient Algorithm for the Identification of Structured Motifs in DNA Promoter Sequences. - Alexandra M. Carvalho; Ana T. Freitas; Arlindo L. Oliveira; Marie-France Sagot (IEEE ACM Trans. Comput. Biol. Bioinform., 2006)

Efficient Learning of Bayesian Network Classifiers. - Alexandra M. Carvalho; Arlindo L. Oliveira; Marie-France Sagot (Australian Conference on Artificial Intelligence, 2007)

Learning bayesian networks consistent with the optimal branching. - Alexandra M. Carvalho; Arlindo L. Oliveira (ICMLA, 2007)

YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae. - Pedro T. Monteiro 001; Nuno D. Mendes; Miguel C. Teixeira; Sofia d'Orey; Sandra Tenreiro; Nuno P. Mira; Hélio Pais; Alexandre P. Francisco; Alexandra M. Carvalho; Artur B. Lourenço; Isabel Sá-Correia; Arlindo L. Oliveira; et al. (Nucleic Acids Res., 2008)

GRISOTTO: A greedy approach to improve combinatorial algorithms for motif discovery with prior knowledge. - Alexandra M. Carvalho; Arlindo L. Oliveira (Algorithms Mol. Biol., 2011)

Discriminative Learning of Bayesian Networks via Factorized Conditional Log-Likelihood. - Alexandra M. Carvalho; Teemu Roos; Arlindo L. Oliveira; Petri Myllymäki (J. Mach. Learn. Res., 2011)

Motif representation and discovery. - Alexandra M. Carvalho (2011)

Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis. - Susana Vinga; Alexandra M. Carvalho; Alexandre P. Francisco; Luís M. S. Russo; Jonas S. Almeida (Algorithms Mol. Biol., 2012)

Class Imbalance in the Prediction of Dementia from Neuropsychological Data. - Cecília Nunes; Dina Silva; Manuela Guerreiro; Alexandre de Mendonça; Alexandra M. Carvalho; Sara C. Madeira (EPIA, 2013)

Efficient Approximation of the Conditional Relative Entropy with Applications to Discriminative Learning of Bayesian Network Classifiers. - Alexandra M. Carvalho; Pedro Adão; Paulo Mateus (Entropy, 2013)

Hybrid learning of Bayesian multinets for binary classification. - Alexandra M. Carvalho; Pedro Adão; Paulo Mateus (Pattern Recognit., 2014)

Outlier Detection in Survival Analysis based on the Concordance C-index. - João Diogo Pinto; Alexandra M. Carvalho; Susana Vinga (BIOINFORMATICS, 2015)

Outlier Detection in Cox Proportional Hazards Models Based on the Concordance c-Index. - João Diogo Pinto; Alexandra M. Carvalho; Susana Vinga (MOD, 2015)

Polynomial-time algorithm for learning optimal tree-augmented dynamic Bayesian networks. - José L. Monteiro; Susana Vinga; Alexandra M. Carvalho (UAI, 2015)

Unsupervised learning of pharmacokinetic responses. - Elson Tomás; Susana Vinga; Alexandra M. Carvalho (Comput. Stat., 2017)

Variational Inference in Probabilistic Single-cell RNA-seq Models. - Pedro F. Ferreira; Alexandra M. Carvalho; Susana Vinga (CIBB, 2018)

Unravelling Breast and Prostate Common Gene Signatures by Bayesian Network Learning. - João Villa-Brito; Marta B. Lopes; Alexandra M. Carvalho; Susana Vinga (CIBB, 2018)

Learning Consistent Tree-Augmented Dynamic Bayesian Networks. - Margarida Sousa; Alexandra M. Carvalho (LOD, 2018)

Model selection for clustering of pharmacokinetic responses. - Rui P. Guerra; Alexandra M. Carvalho; Paulo Mateus (Comput. Methods Programs Biomed., 2018)

Polynomial-Time Algorithm for Learning Optimal BFS-Consistent Dynamic Bayesian Networks. - Margarida Sousa; Alexandra M. Carvalho (Entropy, 2018)

MSAX: Multivariate Symbolic Aggregate Approximation for Time Series Classification. - Manuel Anacleto; Susana Vinga; Alexandra M. Carvalho (CIBB, 2019)

Modelling cancer outcomes of bone metastatic patients: combining survival data with N-Telopeptide of type I collagen (NTX) dynamics through joint models. - Hugo Loureiro; Eunice Carrasquinha; Irina Alho; Arlindo R. Ferreira; Luís Costa; Alexandra M. Carvalho; Susana Vinga (BMC Medical Informatics Decis. Mak., 2019)

AliClu - Temporal sequence alignment for clustering longitudinal clinical data. - Kishan Rama; Helena Canhão; Alexandra M. Carvalho; Susana Vinga (BMC Medical Informatics Decis. Mak., 2019)

Latent Variable Modelling and Variational Inference for scRNA-seq Differential Expression Analysis. - Joana Godinho; Alexandra M. Carvalho; Susana Vinga (ICCABS, 2020)

Predictive Medicine Using Interpretable Recurrent Neural Networks. - André Ferreira; Sara C. Madeira; Marta Gromicho; Mamede de Carvalho; Susana Vinga; Alexandra M. Carvalho (ICPR Workshops (1), 2020)

Sparse Consensus Classification for Discovering Novel Biomarkers in Rheumatoid Arthritis. - Cláudia S. Constantino; Alexandra M. Carvalho; Susana Vinga (LOD (1), 2020)

On the minmax regret for statistical manifolds: the role of curvature. - Bruno Mera; Paulo Mateus; Alexandra M. Carvalho (CoRR, 2020)

Information-Theoretical Criteria for Characterizing the Earliness of Time-Series Data. - Mariano Lemus; João P. Beirão; Nikola Paunkovic; Alexandra M. Carvalho; Paulo Mateus (Entropy, 2020)

Coupling sparse Cox models with clustering of longitudinal transcriptomics data for trauma prognosis. - Cláudia S. Constantino; Alexandra M. Carvalho; Susana Vinga (BioData Min., 2021)

Learning dynamic Bayesian networks from time-dependent and time-independent data: Unraveling disease progression in Amyotrophic Lateral Sclerosis. - Tiago Leão; Sara C. Madeira; Marta Gromicho; Mamede de Carvalho; Alexandra M. Carvalho (J. Biomed. Informatics, 2021)

Model Complexity in Statistical Manifolds: The Role of Curvature. - Bruno Mera; Paulo Mateus; Alexandra M. Carvalho (IEEE Trans. Inf. Theory, 2022)

Evaluating the Causal Role of Environmental Data in Shellfish Biotoxin Contamination on the Portuguese Coast. - Ana Rita Baião; Carolina Peixoto; Marta B. Lopes; Pedro Reis Costa; Alexandra M. Carvalho; Susana Vinga (EPIA (2), 2023)

Causal Graph Discovery for Explainable Insights on Marine Biotoxin Shellfish Contamination. - Diogo Ribeiro; Filipe Ferraz; Marta B. Lopes; Susana Rodrigues; Pedro Reis Costa; Susana Vinga; Alexandra M. Carvalho (IDEAL, 2023)

Comparative Analysis of Machine Learning Models for Time-Series Forecasting of Escherichia Coli Contamination in Portuguese Shellfish Production Areas. - Filipe Ferraz; Diogo Ribeiro; Marta B. Lopes; Sónia Pedro; Susana Vinga; Alexandra M. Carvalho (LOD (1), 2023)

Zgli: A Pipeline for Clustering by Compression with Application to Patient Stratification in Spondyloarthritis. - Diogo Azevedo; Ana Maria Rodrigues; Helena Canhão; Alexandra M. Carvalho; André Souto (Sensors, 2023)

Using Markov chains and temporal alignment to identify clinical patterns in Dementia. - Luísa Marote Costa; João Pedro Colaço; Alexandra M. Carvalho; Susana Vinga; Andreia Sofia Teixeira (J. Biomed. Informatics, 2023)