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28 results on '"Monteiro, João M."'

1. A Tutorial on Canonical Correlation Methods

Author

Uurtio, Viivi, Monteiro, João M., Kandola, Jaz, Shawe-Taylor, John, Fernandez-Reyes, Delmiro, and Rousu, Juho

Subjects
Computer Science - Learning, Statistics - Machine Learning
Abstract

Canonical correlation analysis is a family of multivariate statistical methods for the analysis of paired sets of variables. Since its proposition, canonical correlation analysis has for instance been extended to extract relations between two sets of variables when the sample size is insufficient in relation to the data dimensionality, when the relations have been considered to be non-linear, and when the dimensionality is too large for human interpretation. This tutorial explains the theory of canonical correlation analysis including its regularised, kernel, and sparse variants. Additionally, the deep and Bayesian CCA extensions are briefly reviewed. Together with the numerical examples, this overview provides a coherent compendium on the applicability of the variants of canonical correlation analysis. By bringing together techniques for solving the optimisation problems, evaluating the statistical significance and generalisability of the canonical correlation model, and interpreting the relations, we hope that this article can serve as a hands-on tool for applying canonical correlation methods in data analysis., Comment: 33 pages

Published
2017
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2. Prototyping and Programming a Multipurpose Educational Mobile Robot - NaSSIE

Author

Pinto, Vítor H., Monteiro, João M., Gonçalves, José, Costa, Paulo, Kacprzyk, Janusz, Series Editor, Pal, Nikhil R., Advisory Editor, Bello Perez, Rafael, Advisory Editor, Corchado, Emilio S., Advisory Editor, Hagras, Hani, Advisory Editor, Kóczy, László T., Advisory Editor, Kreinovich, Vladik, Advisory Editor, Lin, Chin-Teng, Advisory Editor, Lu, Jie, Advisory Editor, Melin, Patricia, Advisory Editor, Nedjah, Nadia, Advisory Editor, Nguyen, Ngoc Thanh, Advisory Editor, Wang, Jun, Advisory Editor, Lepuschitz, Wilfried, editor, Merdan, Munir, editor, Koppensteiner, Gottfried, editor, Balogh, Richard, editor, and Obdržálek, David, editor

Published
2019
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5. Leveraging Clinical Data to Enhance Localization of Brain Atrophy

Author

Monteiro, João M., Rao, Anil, Ashburner, John, Shawe-Taylor, John, Mourão-Miranda, Janaina, Hutchison, David, Series editor, Kanade, Takeo, Series editor, Kittler, Josef, Series editor, Kleinberg, Jon M., Series editor, Mattern, Friedemann, Series editor, Mitchell, John C., Series editor, Naor, Moni, Series editor, Pandu Rangan, C., Series editor, Steffen, Bernhard, Series editor, Terzopoulos, Demetri, Series editor, Tygar, Doug, Series editor, Weikum, Gerhard, Series editor, Rish, Irina, editor, Langs, Georg, editor, Wehbe, Leila, editor, Cecchi, Guillermo, editor, Chang, Kai-min Kevin, editor, and Murphy, Brian, editor

Published
2016
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13. Proposal of a lightweight, offline, full-text search engine for an mHealth app.

Author

Teixeira Lopes, Carla, Azevedo, David, and Monteiro, João M.

Subjects
MOBILE health, MOBILE apps, HEALTH management, MEDICAL appointments, INFORMATION retrieval
Abstract

A patient's ability to recall and retrieve health information contributes to a better health management. HealthTalks was developed to address these issues by recording a summary of a medical appointment, uttered by the physician, and transcribing it. For each appointment, the user can also take free-text notes. Nowadays, search engines have become a ubiquitous part of everyone's life and are expected on most applications. Here, we describe the development of a search engine for HealthTalks. The app's characteristics demand a lightweight and offline engine, which requires a specific solution rather than an existing library or service. Our approach combines SQLite's Full-Text Search 4 module, which includes ngram indexing, with traditional information retrieval techniques to rank the documents. We created a test collection with summaries of clinical appointments (our documents), information needs, search queries, and relevance assessments for an initial search engine evaluation. Using this test collection, we assessed performance using NDCG@10, the first rank position of a totally relevant result, and query latency. Results are promising, with an average NDCG of 0.97. The median rank position of the first relevant result varies between 1.9 and 1.95, depending on the use of 4-gram character tokenization, an aspect that did not significantly affect the results. We expect this work to be useful for future developments of full-text search engines in mobile environments. [ABSTRACT FROM AUTHOR]

Published
2022

17. Peptidoglycan synthesis drives an FtsZ-treadmilling-independent step of cytokinesis

Author

Monteiro, João M., primary, Pereira, Ana R., additional, Reichmann, Nathalie T., additional, Saraiva, Bruno M., additional, Fernandes, Pedro B., additional, Veiga, Helena, additional, Tavares, Andreia C., additional, Santos, Margarida, additional, Ferreira, Maria T., additional, Macário, Vânia, additional, VanNieuwenhze, Michael S., additional, Filipe, Sérgio R., additional, and Pinho, Mariana G., additional

Published
2018
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20. A Tutorial on Canonical Correlation Methods.

Author

UURTIO, VIIVI, MONTEIRO, JOÃO M., KANDOLA, JAZ, SHAWE-TAYLOR, JOHN, FERNANDEZ-REYES, DELMIRO, and ROUSU, JUHO

Subjects
*CANONICAL correlation (Statistics), *INSTRUMENTAL variables (Statistics), *MATHEMATICAL regularization, *DATA analysis, *PROBLEM solving
Abstract

Canonical correlation analysis is a family of multivariate statistical methods for the analysis of paired sets of variables. Since its proposition, canonical correlation analysis has, for instance, been extended to extract relations between two sets of variables when the sample size is insufficient in relation to the data dimensionality, when the relations have been considered to be non-linear, and when the dimensionality is too large for human interpretation. This tutorial explains the theory of canonical correlation analysis, including its regularised, kernel, and sparse variants. Additionally, the deep and Bayesian CCA extensions are briefly reviewed. Together with the numerical examples, this overview provides a coherent compendium on the applicability of the variants of canonical correlation analysis. By bringing together techniques for solving the optimisation problems, evaluating the statistical significance and generalisability of the canonical correlation model, and interpreting the relations, we hope that this article can serve as a hands-on tool for applying canonical correlation methods in data analysis. [ABSTRACT FROM AUTHOR]

Published
2018
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22. Cell shape dynamics during the staphylococcal cell cycle

Author

Monteiro, João M., primary, Fernandes, Pedro B., additional, Vaz, Filipa, additional, Pereira, Ana R., additional, Tavares, Andreia C., additional, Ferreira, Maria T., additional, Pereira, Pedro M., additional, Veiga, Helena, additional, Kuru, Erkin, additional, VanNieuwenhze, Michael S., additional, Brun, Yves V., additional, Filipe, Sérgio R., additional, and Pinho, Mariana G., additional

Published
2015
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25. The SpoIIQ-SpoIIIAH complex of C lostridium difficile controls forespore engulfment and late stages of gene expression and spore morphogenesis.

Author

Serrano, Mónica, Crawshaw, Adam D., Dembek, Marcin, Monteiro, João M., Pereira, Fátima C., Pinho, Mariana Gomes, Fairweather, Neil F., Salgado, Paula S., and Henriques, Adriano O.

Subjects
CLOSTRIDIOIDES difficile, BACTERIAL spores, BACILLUS subtilis, GENE expression, BACTERIAL sporulation, MOLECULAR microbiology
Abstract

Engulfment of the forespore by the mother cell is a universal feature of endosporulation. In Bacillus subtilis, the forespore protein SpoIIQ and the mother cell protein SpoIIIAH form a channel, essential for endosporulation, through which the developing spore is nurtured. The two proteins also form a backup system for engulfment. Unlike in B. subtilis, SpoIIQ of Clostridium difficile has intact LytM zinc-binding motifs. We show that spoIIQ or spoIIIAH deletion mutants of C. difficile result in anomalous engulfment, and that disruption of the SpoIIQ LytM domain via a single amino acid substitution (H120S) impairs engulfment differently. SpoIIQ and SpoIIQH120S interact with SpoIIIAH throughout engulfment. SpoIIQ, but not SpoIIQH120S, binds Zn2+, and metal absence alters the SpoIIQ-SpoIIIAH complex in vitro. Possibly, SpoIIQH120S supports normal engulfment in some cells but not a second function of the complex, required following engulfment completion. We show that cells of the spoIIQ or spoIIIAH mutants that complete engulfment are impaired in post-engulfment, forespore and mother cell-specific gene expression, suggesting a channel-like function. Both engulfment and a channel-like function may be ancestral functions of SpoIIQ-SpoIIIAH while the requirement for engulfment was alleviated through the emergence of redundant mechanisms in B. subtilis and related organisms. [ABSTRACT FROM AUTHOR]

Published
2016
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26. Restoring Methicillin-Resistant Staphylococcus aureus Susceptibility to β-Lactam Antibiotics

Author

Tan, Christopher M., primary, Therien, Alex G., additional, Lu, Jun, additional, Lee, Sang H., additional, Caron, Alexandre, additional, Gill, Charles J., additional, Lebeau-Jacob, Christian, additional, Benton-Perdomo, Liliana, additional, Monteiro, João M., additional, Pereira, Pedro M., additional, Elsen, Nathaniel L., additional, Wu, Jin, additional, Deschamps, Kathleen, additional, Petcu, Mihai, additional, Wong, Simon, additional, Daigneault, Etienne, additional, Kramer, Susanne, additional, Liang, Lianzhu, additional, Maxwell, Eugene, additional, Claveau, David, additional, Vaillancourt, John, additional, Skorey, Kathryn, additional, Tam, John, additional, Wang, Hao, additional, Meredith, Timothy C., additional, Sillaots, Susan, additional, Wang-Jarantow, Lisa, additional, Ramtohul, Yeeman, additional, Langlois, Eric, additional, Landry, France, additional, Reid, John C., additional, Parthasarathy, Gopal, additional, Sharma, Sujata, additional, Baryshnikova, Anastasia, additional, Lumb, Kevin J., additional, Pinho, Mariana G., additional, Soisson, Stephen M., additional, and Roemer, Terry, additional

Published
2012
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27. A multiple hold-out framework for Sparse Partial Least Squares

Author

Monteiro, João M., Rao, Anil, Shawe-Taylor, John, and Mourão-Miranda, Janaina

Subjects
Neuroscience(all), Machine learning, Sparse methods, Mini-Mental State Examination, Neuroimaging, Dementia, Partial Least Squares
Abstract

BackgroundSupervised classification machine learning algorithms may have limitations when studying brain diseases with heterogeneous populations, as the labels might be unreliable. More exploratory approaches, such as Sparse Partial Least Squares (SPLS), may provide insights into the brain's mechanisms by finding relationships between neuroimaging and clinical/demographic data. The identification of these relationships has the potential to improve the current understanding of disease mechanisms, refine clinical assessment tools, and stratify patients. SPLS finds multivariate associative effects in the data by computing pairs of sparse weight vectors, where each pair is used to remove its corresponding associative effect from the data by matrix deflation, before computing additional pairs.New methodWe propose a novel SPLS framework which selects the adequate number of voxels and clinical variables to describe each associative effect, and tests their reliability by fitting the model to different splits of the data. As a proof of concept, the approach was applied to find associations between grey matter probability maps and individual items of the Mini-Mental State Examination (MMSE) in a clinical sample with various degrees of dementia.ResultsThe framework found two statistically significant associative effects between subsets of brain voxels and subsets of the questions/tasks.Comparison with existing methodsSPLS was compared with its non-sparse version (PLS). The use of projection deflation versus a classical PLS deflation was also tested in both PLS and SPLS.ConclusionsSPLS outperformed PLS, finding statistically significant effects and providing higher correlation values in hold-out data. Moreover, projection deflation provided better results.

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28. Restoring Methicillin-Resistant Staphylococcus aureusSusceptibility to β-Lactam Antibiotics

Author

Tan, Christopher M., Therien, Alex G., Lu, Jun, Lee, Sang H., Caron, Alexandre, Gill, Charles J., Lebeau-Jacob, Christian, Benton-Perdomo, Liliana, Monteiro, João M., Pereira, Pedro M., Elsen, Nathaniel L., Wu, Jin, Deschamps, Kathleen, Petcu, Mihai, Wong, Simon, Daigneault, Etienne, Kramer, Susanne, Liang, Lianzhu, Maxwell, Eugene, Claveau, David, Vaillancourt, John, Skorey, Kathryn, Tam, John, Wang, Hao, Meredith, Timothy C., Sillaots, Susan, Wang-Jarantow, Lisa, Ramtohul, Yeeman, Langlois, Eric, Landry, France, Reid, John C., Parthasarathy, Gopal, Sharma, Sujata, Baryshnikova, Anastasia, Lumb, Kevin J., Pinho, Mariana G., Soisson, Stephen M., and Roemer, Terry

Abstract

Methicillin-resistant Staphylococcus aureusinfection can be treated effectively by combining a β-lactam antibiotic with a drug that targets FtsZ.

Published
2012
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