Susana Vinga

Publication Activity (10 Years)

Years Active: 2002-2023
Publications (10 Years): 32

Top Topics

Variational Inference

Outlier Detection

Gene Expression

Colorectal Cancer

Top Venues

Briefings Bioinform.

BMC Medical Informatics Decis. Mak.

Publications

Diogo Ribeiro, Filipe Ferraz, Marta B. Lopes, Susana Rodrigues, Pedro R. Costa, Susana Vinga, Alexandra M. Carvalho
Causal Graph Discovery for Explainable Insights on Marine Biotoxin Shellfish Contamination. IDEAL (2023)
Carolina Peixoto, Marta B. Lopes, Marta Martins, Sandra Casimiro, Daniel Sobral, Ana Rita Grosso, Catarina Abreu, Daniela Macedo, Ana Lúcia Costa, Helena Pais, Cecília Alvim, André Mansinho, Pedro Filipe, Pedro Marques da Costa, Afonso Fernandes, Paula Borralho, Cristina Ferreira, João Malaquias, António Quintela, Shannon Kaplan, Mahdi Golkaram, Michael Salmans, Nafeesa Khan, Raakhee Vijayaraghavan, Shile Zhang, Traci Pawlowski, Jim Godsey, Alex So, Li Liu, Luís Costa, Susana Vinga
Identification of biomarkers predictive of metastasis development in early-stage colorectal cancer using network-based regularization. BMC Bioinform. 24 (1) (2023)
Luísa Marote Costa, João Pedro Colaço, Alexandra M. Carvalho, Susana Vinga, Andreia Sofia Teixeira
Using Markov chains and temporal alignment to identify clinical patterns in Dementia. J. Biomed. Informatics 140 (2023)
Ana Rita Baião, Carolina Peixoto, Marta B. Lopes, Pedro Reis Costa, Alexandra M. Carvalho, Susana Vinga
Evaluating the Causal Role of Environmental Data in Shellfish Biotoxin Contamination on the Portuguese Coast. EPIA (2) (2023)
Filipe Ferraz, Diogo Ribeiro, Marta B. Lopes, Sónia Pedro, Susana Vinga, Alexandra M. Carvalho
Comparative Analysis of Machine Learning Models for Time-Series Forecasting of Escherichia Coli Contamination in Portuguese Shellfish Production Areas. LOD (1) (2023)
Thomas Villmann, Jonas S. Almeida, Lee John, Susana Vinga
Tutorial - Machine Learning and Information Theoretic Methods for Molecular Biology and Medicine. ESANN (2022)
Beatriz N. Leitão, Paula Faustino, Susana Vinga
Comparative Evaluation of Classification Indexes and Outlier Detection of Microcytic Anaemias in a Portuguese Sample. EPIA (2022)
Susana Vinga
Structured sparsity regularization for analyzing high-dimensional omics data. Briefings Bioinform. 22 (1) (2021)
Cláudia S. Constantino, Alexandra M. Carvalho, Susana Vinga
Coupling sparse Cox models with clustering of longitudinal transcriptomics data for trauma prognosis. BioData Min. 14 (1) (2021)
Cláudia S. Constantino, Alexandra M. Carvalho, Susana Vinga
Sparse Consensus Classification for Discovering Novel Biomarkers in Rheumatoid Arthritis. LOD (1) (2020)
Joana Godinho, Alexandra M. Carvalho, Susana Vinga
Latent Variable Modelling and Variational Inference for scRNA-seq Differential Expression Analysis. ICCABS (2020)
Inês Diegues, Susana Vinga, Marta B. Lopes
Identification of Common Gene Signatures in Microarray and RNA-Sequencing Data Using Network-Based Regularization. IWBBIO (2020)
Eunice Carrasquinha, André Veríssimo, Marta B. Lopes, Susana Vinga
Network-Based Variable Selection for Survival Outcomes in Oncological Data. IWBBIO (2020)
Ricardo Andrade, Mahdi Doostmohammadi, João L. Santos, Marie-France Sagot, Nuno P. Mira, Susana Vinga
MOMO - multi-objective metabolic mixed integer optimization: application to yeast strain engineering. BMC Bioinform. 21 (1) (2020)
André Ferreira, Sara C. Madeira, Marta Gromicho, Mamede de Carvalho, Susana Vinga, Alexandra M. Carvalho
Predictive Medicine Using Interpretable Recurrent Neural Networks. ICPR Workshops (1) (2020)
Marta B. Lopes, Susana Vinga
Tracking intratumoral heterogeneity in glioblastoma via regularized classification of single-cell RNA-Seq data. BMC Bioinform. 21 (1) (2020)
Marta B. Lopes, André Veríssimo, Eunice Carrasquinha, Susana Vinga
On the Role of Hub and Orphan Genes in the Diagnosis of Breast Invasive Carcinoma. LOD (2019)
Marta B. Lopes, Sandra Casimiro, Susana Vinga
Twiner: correlation-based regularization for identifying common cancer gene signatures. BMC Bioinform. 20 (1) (2019)
Kishan Rama, Helena Canhão, Alexandra M. Carvalho, Susana Vinga
AliClu - Temporal sequence alignment for clustering longitudinal clinical data. BMC Medical Informatics Decis. Mak. 19 (1) (2019)
Hugo Loureiro, Eunice Carrasquinha, Irina Alho, Arlindo R. Ferreira, Luís Costa, Alexandra M. Carvalho, Susana Vinga
Modelling cancer outcomes of bone metastatic patients: combining survival data with N-Telopeptide of type I collagen (NTX) dynamics through joint models. BMC Medical Informatics Decis. Mak. 19 (1) (2019)
Marta B. Lopes, Sandra Casimiro, Susana Vinga
Twiner: correlation-based regularization for identifying common cancer gene signatures. BMC Bioinform. 20 (1) (2019)
Manuel Anacleto, Susana Vinga, Alexandra M. Carvalho
MSAX: Multivariate Symbolic Aggregate Approximation for Time Series Classification. CIBB (2019)
André Veríssimo, Marta B. Lopes, Eunice Carrasquinha, Susana Vinga
Random Sample Consensus for the Robust Identification of Outliers in Cancer Data. CIBB (2019)
Eunice Carrasquinha, André Veríssimo, Marta B. Lopes, Susana Vinga
Variable Selection and Outlier Detection in Regularized Survival Models: Application to Melanoma Gene Expression Data. LOD (2018)
Pedro F. Ferreira, Alexandra M. Carvalho, Susana Vinga
Variational Inference in Probabilistic Single-cell RNA-seq Models. CIBB (2018)
Joana P. Neto, Rui Moura Coelho, Duarte Valério, Susana Vinga, Dominik Sierociuk, Wiktor Malesza, Michal Macias, Andrzej Dzielinski
Simplifying biochemical tumorous bone remodeling models through variable order derivatives. Comput. Math. Appl. 75 (9) (2018)
Marta B. Lopes, André Veríssimo, Eunice Carrasquinha, Sandra Casimiro, Niko Beerenwinkel, Susana Vinga
Ensemble outlier detection and gene selection in triple-negative breast cancer data. BMC Bioinform. 19 (1) (2018)
Eunice Carrasquinha, André Veríssimo, Marta B. Lopes, Susana Vinga
Identification of influential observations in high-dimensional cancer survival data through the rank product test. BioData Min. 11 (1) (2018)
João Villa-Brito, Marta B. Lopes, Alexandra M. Carvalho, Susana Vinga
Unravelling Breast and Prostate Common Gene Signatures by Bayesian Network Learning. CIBB (2018)
Elson Tomás, Susana Vinga, Alexandra M. Carvalho
Unsupervised learning of pharmacokinetic responses. Comput. Stat. 32 (2) (2017)
João Miranda Lemos, Daniela V. Caiado, Rui Coelho, Susana Vinga
Optimal and receding horizon control of tumor growth in myeloma bone disease. Biomed. Signal Process. Control. 24 (2016)
André Veríssimo, Arlindo Limede Oliveira, Marie-France Sagot, Susana Vinga
DegreeCox - a network-based regularization method for survival analysis. BMC Bioinform. 17 (S-16) (2016)
José L. Monteiro, Susana Vinga, Alexandra M. Carvalho
Polynomial-time algorithm for learning optimal tree-augmented dynamic Bayesian networks. UAI (2015)
András Hartmann, João Miranda Lemos, Susana Vinga
Modeling multiple experiments using regularized optimization: A case study on bacterial glucose utilization dynamics. Comput. Biol. Medicine 63 (2015)
João Diogo Pinto, Alexandra M. Carvalho, Susana Vinga
Outlier Detection in Survival Analysis based on the Concordance C-index. BIOINFORMATICS (2015)
Lúcia P. Cruz, Susana M. Vieira, Susana Vinga
Fuzzy Clustering for Incomplete Short Time Series Data. EPIA (2015)
João Diogo Pinto, Alexandra M. Carvalho, Susana Vinga
Outlier Detection in Cox Proportional Hazards Models Based on the Concordance c-Index. MOD (2015)
Susana Vinga
Editorial: Alignment-free methods in computational biology. Briefings Bioinform. 15 (3) (2014)
Rafael S. Costa, André Veríssimo, Susana Vinga
KiMoSys: a web-based repository of experimental data for KInetic MOdels of biological SYStems. BMC Syst. Biol. 8 (2014)
Rafael S. Costa, Son Nguyen, András Hartmann, Susana Vinga
Exploring the Cellular Objective in Flux Balance Constraint-Based Models. CMSB (2014)
András Hartmann, João Miranda Lemos, Rafael S. Costa, Susana Vinga
Identifying IIR filter coefficients using particle swarm optimization with application to reconstruction of missing cardiovascular signals. Eng. Appl. Artif. Intell. 34 (2014)
Susana Vinga
Information theory applications for biological sequence analysis. Briefings Bioinform. 15 (3) (2014)
André Veríssimo, Laura Paixão, Ana Rita Neves, Susana Vinga
BGFit: management and automated fitting of biological growth curves. BMC Bioinform. 14 (2013)
András Hartmann, Susana Vinga, João Miranda Lemos
Hybrid identification of time-varying parameter with particle filtering and expectation maximization. MED (2013)
Sara Silva, Vijay Ingalalli, Susana Vinga, João Manuel de Brito Carreiras, Joana B. Melo, Mauro Castelli, Leonardo Vanneschi, Ivo Gonçalves, José Caldas
Prediction of Forest Aboveground Biomass: An Exercise on Avoiding Overfitting. EvoApplications (2013)
Ana Portêlo, João Miranda Lemos, Susana Vinga, Ruy M. Ribeiro, J. P. Cruz, E. Valadas
Parameter estimation and identifiability of a HIV-1 model. MED (2013)
András Hartmann, Susana Vinga, João Miranda Lemos
Identification of Hiv-1 Dynamics - Estimating the Noise Model, Constant and Time-varying Parameters of Long-term Clinical Data. BIOINFORMATICS (2012)
Jonas S. Almeida, Alexander Grüneberg, Wolfgang Maass, Susana Vinga
Fractal MapReduce decomposition of sequence alignment. Algorithms Mol. Biol. 7 (2012)
Susana Vinga, Alexandra M. Carvalho, Alexandre P. Francisco, Luís M. S. Russo, Jonas S. Almeida
Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis. Algorithms Mol. Biol. 7 (2012)
Rafael S. Costa, Daniel Machado, A. R. Neves, Susana Vinga
Multi-level Dynamic Modeling in Biological Systems - Application of Hybrid Petri Nets to Network Simulation. BIOINFORMATICS (2012)
Nuno Tenazinha, Susana Vinga
A Survey on Methods for Modeling and Analyzing Integrated Biological Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 8 (4) (2011)
Dulce Calçada, Susana Vinga, Ana T. Freitas, Arlindo L. Oliveira
Flr1 regulatory Network Using an S-System Formalism. J. Bioinform. Comput. Biol. 9 (5) (2011)
Joao V. Pinheiro, João Miranda Lemos, Susana Vinga
Nonlinear MPC of HIV-1 infection with periodic inputs. CDC/ECC (2011)
Dulce Calçada, Susana Vinga, Ana T. Freitas, Arlindo L. Oliveira
Quantitative Modeling the Saccharomyces cerevisiae FLR1 Regulatory Network Using an S-System Formalism. HISB (2011)
András Hartmann, Susana Vinga, João Miranda Lemos
Unified Modeling of Several Perturbation Experiments in Systems Biology - A Case Study on the Glucose Uptake of Lactococcus Lactis. BIOINFORMATICS (2011)
Alexandre Domingues, Susana Vinga, João Miranda Lemos
Optimization strategies for metabolic networks. BMC Syst. Biol. 4 (2010)
Orlando Anunciação, Bruno C. Gomes, Susana Vinga, Jorge Gaspar, Arlindo L. Oliveira, José Rueff
A Data Mining Approach for the Detection of High-Risk Breast Cancer Groups. IWPACBB (2010)
Alexandre Domingues, João Miranda Lemos, Susana Vinga
Optimization strategies for metabolic networks. ECC (2009)
Jonas S. Almeida, Susana Vinga
Biological sequences as pictures - a generic two dimensional solution for iterated maps. BMC Bioinform. 10 (2009)
Marco Vilela, Susana Vinga, Marco Maia, Eberhard O. Voit, Jonas S. Almeida
Identification of neutral biochemical network models from time series data. BMC Syst. Biol. 3 (2009)
Ana C. Casimiro, Susana Vinga, Ana T. Freitas, Arlindo L. Oliveira
An analysis of the positional distribution of DNA motifs in promoter regions and its biological relevance. BMC Bioinform. 9 (2008)
Marco Vilela, I-Chun Chou, Susana Vinga, Ana Tereza Ribeiro de Vasconcelos, Eberhard O. Voit, Jonas S. Almeida
Parameter optimization in S-system models. BMC Syst. Biol. 2 (2008)
Susana Vinga, Jonas S. Almeida
Local Renyi entropic profiles of DNA sequences. BMC Bioinform. 8 (2007)
Marco Vilela, Carlos Cristiano H. Borges, Susana Vinga, Ana Tereza Ribeiro de Vasconcelos, Helena Santos, Eberhard O. Voit, Jonas S. Almeida
Automated smoother for the numerical decoupling of dynamics models. BMC Bioinform. 8 (2007)
Jonas S. Almeida, Susana Vinga
Computing distribution of scale independent motifs in biological sequences. Algorithms Mol. Biol. 1 (2006)
Susana Vinga, Rodrigo Gouveia-Oliveira, Jonas S. Almeida
Comparative evaluation of word composition distances for the recognition of SCOP relationships. Bioinform. 20 (2) (2004)
Susana Vinga, Jonas S. Almeida
Alignment-free sequence comparison-a review. Bioinform. 19 (4) (2003)
Jonas S. Almeida, Susana Vinga
Universal sequence map (USM) of arbitrary discrete sequences. BMC Bioinform. 3 (2002)