A5072979086- Biomedical Text Mining and Ontologies
- Semantic Web and Ontologies
- Bioinformatics and Genomic Networks
- Natural Language Processing Techniques
- Service-Oriented Architecture and Web Services
- Data Quality and Management
- Machine Learning in Bioinformatics
- Scientific Computing and Data Management
- Advanced Proteomics Techniques and Applications
- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- Topic Modeling
- Artificial Intelligence in Healthcare
- Research Data Management Practices
- Vitamin C and Antioxidants Research
- COVID-19 Clinical Research Studies
- Vitamin D Research Studies
- Genomics and Rare Diseases
- RNA and protein synthesis mechanisms
- vaccines and immunoinformatics approaches
- Neural Networks and Applications
- Time Series Analysis and Forecasting
- Data Visualization and Analytics
- Cystic Fibrosis Research Advances
- Computational Drug Discovery Methods
University of Lisbon
2011-2024
Instituto de Engenharia de Sistemas e Computadores Investigação e Desenvolvimento
2020-2024
Hospital Prof. Dr. Fernando Fonseca
2022-2024
Algarve Biomedical Center
2024
Instituto Superior Técnico
2023
Instituto Gulbenkian de Ciência
2010-2022
Institute for Systems Engineering and Computers
2009-2020
Smith College
2018
Syracuse University
2018
University of Memphis
2018
Several semantic similarity measures have been applied to gene products annotated with Gene Ontology terms, providing a basis for their functional comparison. However, it is still unclear which the best approach in this context, since there no conclusive evaluation of various measures. Another issue, whether electronic annotations should or not be used calculations. We conducted systematic GO-based using relationship sequence as means quantify performance, and assessed influence by testing...
Enabling data reuse and knowledge discovery is increasingly critical in modern science, requires an effort towards standardising publication practices. This particularly challenging the plant phenotyping domain, due to its complexity heterogeneity. We have produced MIAPPE 1.1 release, which enhances existing standard coverage, support perennial plants, structure, through explicit model, clarity, definitions examples. evaluated by using it express several heterogeneous experiments a range of...
Abstract Vitamin D is a fundamental regulator of host defences by activating genes related to innate and adaptive immunity. Previous research shows correlation between the levels vitamin in patients infected with SARS-CoV-2 degree disease severity. This work investigates impact genetic background pathways on COVID-19 For first time, Portuguese population was characterized regarding prevalence high variants associated pathways. study enrolled 517 admitted two tertiary hospitals. The serum...
Ontology Matching aims at identifying a set of semantic correspondences, called an alignment, between related ontologies. In recent years, there has been growing interest in efficient and effective matching methods for large However, alignments produced ontologies are often logically incoherent. It was only recently that the use repair techniques to improve coherence ontology began be explored. This paper presents novel modularization technique alignment which extracts fragments input...
Biomedical ontologies pose several challenges to ontology matching due both the complexity of biomedical domain and characteristics themselves. The tracks in Ontology Matching Evaluation Initiative (OAEI) have spurred development systems able tackle these challenges, benchmarked their general performance. In this study, we dissect strategies employed by gauge impact themselves on performance, using AgreementMakerLight (AML) system as platform for study. We demonstrate that linear hash-based...
Despite the structure and objectivity provided by Gene Ontology (GO), annotation of proteins is a complex task that subject to errors inconsistencies. Electronically inferred annotations in particular are widely considered unreliable. However, given manual curation all GO unfeasible, it imperative improve quality electronically annotations. In this work, we analyze full molecular function UniProtKB proteins, discuss some issues affect their quality, focusing particularly on lack consistency....
Ontology matching is a growing field of research that critical importance for the semantic web initiative. The use background knowledge ontology often key factor success, particularly in complex and lexically rich domains such as life sciences. However, most systems, sources are either predefined by system or have to be provided user. In this paper, we present novel methodology automatically selecting any given ontologies match. This measures usefulness each source assessing fraction classes...
Abstract User validation is one of the challenges facing ontology alignment community, as there are limits to quality alignments produced by automated algorithms. In this paper, we present a broad study on user that encompasses three distinct but inter-related aspects: profile user, services system, and its interface. We discuss key issues pertaining process under each these aspects provide an overview how current systems address them. Finally, use experiments from Interactive Matching track...