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Sérgio Matos received his PhD in Computer Science in 2007 by the University of Leicester (UK) and the Habilitation in Computer Science in 2024 by the University of Aveiro. He is currently Associate Professor in the Department of Electronics, Telecommunications and Informatics, Universidade de Aveiro and researcher in the Biomedical Informatics and Technologies group of the Institute of Electronics and Informatics Engineering of Aveiro, since 2008. He coordinated the creation and was the director of the Master's in Data Science at Universidade de Aveiro during the academic years 2021/22 and 2022/23. His main research interests are in machine learning, data mining, information retrieval, information extraction, and semantic data annotation. S. Matos has published over 100 papers in international journals and conferences, and has been an active participant in several biomedical and clinical shared tasks and community challenges, including Biocreative, i2b2/n2c2, TREC and BioASQ. He is a reviewer for several journals and member of the program committee in the main NLP and IR conferences, namely ACL, EACL, NAACL, EMNLP, ACM SIGIR and ECIR, and has served as evaluator for R&D project proposals at a national level. S. Matos is currently involved in two European research projects, and has participated in five other European projects and eigth national projects, and was member of the Management Committee of an ICT Cost Action from 2013 to 2017. He was the PI of a nationally funded research project (FCT), two exploratory projects in text and data mining, and four advanced computing projects. He has supervised 30 MSc students and 5 PhD theses and is currently supervisor of three PhD students, working in the areas of deep learning, natural language processing, information retrieval and information extraction.
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Identificação

Identificação pessoal

Nome completo
Sérgio Matos

Nomes de citação

  • Matos, Sérgio

Identificadores de autor

Ciência ID
4F1F-7BD8-AE4E
ORCID iD
0000-0003-1941-3983
Google Scholar ID
qv26xhMAAAAJ
Researcher Id
G-4941-2010
Scopus Author Id
26031510200

Domínios de atuação

  • Ciências Exatas - Ciências da Computação e da Informação - Ciências da Computação
  • Ciências Exatas - Ciências da Computação e da Informação - Ciências da Informação

Idiomas

Idioma Conversação Leitura Escrita Compreensão Peer-review
Inglês Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1)
Francês Utilizador elementar (A1) Utilizador elementar (A1) Utilizador elementar (A1) Utilizador elementar (A1)
Espanhol; Castelhano Utilizador elementar (A1) Utilizador elementar (A1) Utilizador elementar (A1)
Formação
Grau Classificação
2024/07/31
Concluído
 AGREGAÇÃO EM INFORMÁTICA (Título de Agregado)
Universidade de Aveiro, Portugal
"Biomedical Natural Language Processing - From Bags of Words to Large Language Models" (TESE/DISSERTAÇÃO)
2007
Concluído
 PhD (Doctor of Philosophy)
University of Leicester, Reino Unido
"Automatic Detection and Analysis of Cough Sounds" (TESE/DISSERTAÇÃO)
 n/a
1999
Concluído
 Engenharia de Sistemas e Computação (Licenciatura)
Universidade do Algarve Faculdade de Ciências e Tecnologia, Portugal
"Blood Flow Parameters Evaluation Using Wavelet Transforms" (TESE/DISSERTAÇÃO)
 16
Percurso profissional

Ciência

Categoria Profissional
Instituição de acolhimento 		Empregador
2014/01/01 - Atual Investigador (Investigação) Universidade de Aveiro Instituto de Engenharia Eletrónica e Informática de Aveiro, Portugal
2008/09/01 - 2013/08/31 Investigador Auxiliar (carreira) (Investigação) Universidade de Aveiro Instituto de Engenharia Eletrónica e Informática de Aveiro, Portugal
2007/07/16 - 2008/08/15 Investigador (Investigação) Universidade do Porto Centro de Linguística, Portugal
2001/11/19 - 2006/11/30 Investigador Contratado (Investigação) University Hospitals of Leicester NHS Trust, Reino Unido

Docência no Ensino Superior

Categoria Profissional
Instituição de acolhimento 		Empregador
2024/03 - Atual Professor Associado (Docente Universitário) Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018/06/01 - 2024/03 Professor Auxiliar (Docente Universitário) Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal

Cargos e Funções

Categoria Profissional
Instituição de acolhimento 		Empregador
2021/06 - 2023/08 Director of the Master's in Data Science Universidade de Aveiro, Portugal

Outros

Categoria Profissional
Instituição de acolhimento 		Empregador
2001/01/15 - 2001/10/31 Consultant (Informatics) Hospital de Faro, Portugal
Projetos

Projeto

Designação Financiadores
2023/04 - Atual BioData.pt
POCI-01-0145-FEDER-022231
ELIXIR PT Node Technical Coordinator
2023/02 - Atual GDI - Genomic Data Infrastructure
101081813
Investigador
Universidade de Aveiro Instituto de Engenharia Eletrónica e Informática de Aveiro, Portugal
 European Union
Em curso
2024/03/01 - 2027/02/28 EOSC-ENTRUST: A European Network of TRUSTed research environments
101131056
Investigador
BioData.pt, Portugal
 European Union
Em curso
2021/01/01 - 2025/12/31 Laboratório Associado de Sistemas Inteligentes
10.54499/LA/P/0104/2020
Universidade Nova de Lisboa Centro de Tecnologias e Sistemas, Portugal

Universidade de Aveiro Centro de Tecnologia Mecânica e Automação, Portugal

Instituto Politécnico do Porto Centro de Investigação em Sistemas Computacionais Embebidos e de Tempo-Real, Portugal

Universidade do Minho, Portugal

Universidade do Porto Faculdade de Ciências, Portugal

Universidade do Porto Centro de Matemática, Portugal

Universidade do Porto Laboratório de Inteligência Artificial e Ciência de Computadores, Portugal

Universidade de Aveiro Instituto de Engenharia Eletrónica e Informática de Aveiro, Portugal

Universidade de Aveiro, Portugal

Universidade do Minho Instituto de Polímeros e Compósitos, Portugal

Universidade do Minho Centro ALGORITMI, Portugal

Universidade Nova de Lisboa Unidade de Investigação e Desenvolvimento em Engenharia Mecânica e Industrial, Portugal

Instituto Politécnico do Porto Instituto Superior de Engenharia do Porto, Portugal

Universidade de Coimbra, Portugal

Universidade de Coimbra Centro de Informatica e Sistemas, Portugal

Instituto Politécnico do Porto Grupo de Investigação em Engenharia e Computação Inteligente para a Inovação e o Desenvolvimento, Portugal

Instituto Politécnico do Cávado e do Ave, Portugal

Universidade do Porto Faculdade de Engenharia, Portugal

Universidade NOVA de Lisboa, Portugal
Fundação para a Ciência e a Tecnologia
Em curso
2021/02/01 - 2024/01/31 PandIA - Management of Pandemic Social Isolation Based on City and Social Intelligence
DSAIPA/AI/0088/2020
10.54499/DSAIPA/AI/0088/2020
Investigador
Instituto Politécnico de Bragança, Portugal
 Fundação para a Ciência e a Tecnologia
Em curso
2018/11 - 2023/10 EHDEN - Electronic Health Data in a European Network
IMI2 806968
Investigador
Innovative Medicines Initiative
Em curso
2017/04 - 2020/03 SOCA - Smart Open Campus
CENTRO-01-0145-FEDER-000010
Investigador
European Regional Development Fund
Concluído
2016/07 - 2019/06 Multimodal Information Retrieval in Medical Imaging Repositories
PTDC/EEI-ESS/6815/2014
Investigador
Fundação para a Ciência e a Tecnologia
2016/04 - 2019/03 SCREEN-DR - Image Analysis and Machine Learning Platform for Innovation in Diabetic Retinopathy Screening
CMUP-ERI/TIC/0028/2014
Investigador
Fundação para a Ciência e a Tecnologia
Concluído
2014/01/01 - 2018/12/31 Information extraction and text mining to support literature-based knowledge discovery in biomedicine
IF/01694/2013/CP1162/CT0018
Investigador responsável
Concluído
2012/10 - 2016/09 EMIF - European Medical Information Framework
IMI-JU 115372
Investigador
European Commission
2013/01 - 2014/12 NeuroPath - New Strategies Applied to Neuropathological Disorders
CENTRO-07-ST24-FEDER-002034
Investigador
European Regional Development Fund
Concluído
2010/05/01 - 2013/10 Query term expansion methodologies for improved biomedical literature retrieval
info:eu-repo/grantAgreement/FCT/5876-PPCDTI/100541/PT
Investigador responsável
Fundação para a Ciência e a Tecnologia
2012/03 - 2012/08 SPotTED - Social web Public healTh Event Detection
n/a
Investigador responsável
Servidor de Apontadores Portugueses Online
2008/03/01 - 2012/06 World Search
QREN 11495 WS
Investigador
European Regional Development Fund
Concluído
2008/07 - 2011/06 EU-ADR - Exploring and Understanding Adverse Drug Reactions by Integrative Mining of Clinical Records and Biomedical Knowledge
EU FP7 215847
Investigador
European Commission
Concluído
2007/07 - 2008/06 Corpógrafo
n/a
Bolseiro de Investigação
Fundacao para a Computacao Cientifica Nacional
Concluído

Outro

Designação Financiadores
2002 - Atual Leicester Cough Monitor
n/a
Investigador responsável
University Hospitals of Leicester NHS Trust, Reino Unido

King's College Hospital, Reino Unido
Em curso
2013/10 - 2017/10 KEYSTONE - Semantic keyword-based search on structured data sources
COST IC1302
Outra
European Cooperation in Science and Technology
Concluído
Produções

Publicações

Artigo em conferência
  1. Jonker, Richard Adolph Aires; Poudel, Roshan; Fajarda, Olga; Matos, Sérgio; Oliveira, José Luís; Lopes, Rui Pedro. "Portuguese Twitter Dataset on COVID-19". Istanbul, 2022.
    10.1109/asonam55673.2022.10068592
  2. Almeida, Tiago; Antunes, Rui; Silva, João Figueira; Almeida, João Rafael; Matos, Sérgio. "Chemical detection and indexing in PubMed full text articles using deep learning and rule-based methods". Trabalho apresentado em BioCreative VII Challenge Evaluation Workshop, Online, 2021.
  3. Antunes, Rui; Almeida, Tiago; Silva, João Figueira; Matos, Sérgio. "Chemical¿protein relation extraction in PubMed abstracts using BERT and neural networks". Trabalho apresentado em BioCreative VII Challenge Evaluation Workshop, Online, 2021.
  4. Silva, João Figueira; Almeida, Tiago; Antunes, Rui; Almeida, João Rafael; Matos, Sérgio. "Drug mention recognition in Twitter posts using a deep learning approach". Trabalho apresentado em BioCreative VII Challenge Evaluation Workshop, Online, 2021.
  5. Matos, Sérgio. "BioASQ Synergy: A strong and simple baseline rooted in relevance feedback". Trabalho apresentado em CLEF 2021 - Conference and Labs of the Evaluation Forum, 2021.
    Publicado
  6. Almeida, Tiago; Matos, Sérgio. "Universal Passage Weighting Mecanism (UPWM) in BioASQ 9b". Trabalho apresentado em CLEF 2021 - Conference and Labs of the Evaluation Forum, 2021.
    Publicado
  7. Silva, Joao Figueira; Matos, Sergio. "Patient Trajectory Modelling in Longitudinal Data: A Review on Existing Solutions". 2021.
    10.1109/cbms52027.2021.00057
  8. Almeida, Tiago; Matos, Sérgio. "Benchmarking a transformer-{FREE} model for ad-hoc retrieval". Trabalho apresentado em 16th Conference of the European Chapter of the Association for Computational Linguistics, 2021.
    Publicado
  9. Jorge Miguel Ferreira da Silva; Pratas, Diogo; Caetano, Tania; Matos, Sérgio. "Archaea Taxonomic Classification". Trabalho apresentado em 27th Portuguese Conference on Pattern Recognition, RecPad 2021, Évora, 2021.
    Publicado
  10. Almeida, Tiago; Matos, Sérgio. "Frugal neural reranking: evaluation on the Covid-19 literature". 2020.
    10.18653/v1/2020.nlpcovid19-2.3
  11. Almeida, Tiago; Matos, Sérgio. "BIT.UA at BioASQ 8: Lightweight neural document ranking with zero-shot snippet retrieval". 2020.
    Publicado
  12. Antunes, Rui; Silva, João Figueira; Matos, Sérgio. "Evaluating semantic textual similarity in clinical sentences using deep learning and sentence embeddings". Brno, 2020.
    Publicado • 10.1145/3341105.3373987
  13. Almeida, João Rafael; Matos, Sérgio. "Rule-based extraction of family history information from clinical notes". Brno, 2020.
    Publicado • 10.1145/3341105.3374000
  14. Matos, Sérgio. "Clinical concept normalization on medical records using word embeddings and heuristics". 2020.
    10.3233/SHTI200129
  15. Jorge Miguel Ferreira da Silva; Pratas, Diogo; Matos, Sérgio. "Comparison and Evaluation of Information-based Measures in Images.". Trabalho apresentado em 26th Portuguese Conference on Pattern Recognition, RecPad 2020, Évora, 2020.
    Publicado
  16. Antunes, Rui; Silva, João; Pereira, Arnaldo; Matos, Sérgio. "Rule-based and Machine Learning Hybrid System for Patient Cohort Selection". Prague, 2019.
    Publicado • 10.5220/0007349300590067
  17. Jorge Miguel Ferreira da Silva; Pratas, Diogo; Matos, Sérgio. "Evaluation of Statistical Complexity in Viral Genome Sequences". Trabalho apresentado em 25th Portuguese Conference on Pattern Recognition, RecPad 2019, Porto, Porto, 2019.
    Publicado
  18. Matos, Pedro; Matos, Sérgio. "Recognition of genetic mutations in text using deep learning". 2018.
    10.1145/3279996.3280020
  19. Pereira, Vitor; Matos, Sérgio; Oliveira, José Luís. "Automated ICD-9-CM medical coding of diabetic patient's clinical reports". 2018.
    10.1145/3279996.3280019
  20. Silva, Joao Figueira; Silva, Jorge Miguel; Guerra, Antonio; Matos, Sergio; Costa, Carlos. "Ejection Fraction Classification in Transthoracic Echocardiography Using a Deep Learning Approach". 2018.
    10.1109/cbms.2018.00029
  21. Matos, Sérgio. "Ejection fraction classification in transthoracic echocardiography using a deep learning approach". 2018.
    10.1109/CBMS.2018.00029
  22. Antunes, Rui; Matos, Sérgio. "Evaluation of word embedding vector averaging functions for biomedical word sense disambiguation". Trabalho apresentado em 9th INForum ¿ Informatics Symposium, Aveiro, 2017.
  23. Matos, Sérgio; Antunes, Rui. "Identifying relevant literature for precision medicine using deep neural networks". Trabalho apresentado em BioCreative VI Workshop, Bethesda, Maryland, 2017.
  24. Antunes, Rui; Matos, Sérgio. "Machine learning with word embeddings applied to biomedical concept disambiguation". Trabalho apresentado em 22nd Portuguese Conference on Pattern Recognition, Aveiro, 2016.
  25. Santos, A.; Matos, S.; Campos, D.; Oliveira, J.L.. "A curation pipeline and web-services for PDF documents". 2016.
  26. Monteiro, E.; Sernadela, P.; Matos, S.; Costa, C.; Oliveira, J.L.. "Semantic knowledge base construction from radiology reports". 2016.
  27. Viana-Ferreira, C.; Matos, S.; Costa, C.. "Incremental learning versus batch learning for classification of user's behaviour in medical imaging". 2015.
  28. Sernadela, P.; Matos, S.; Oliveira, J.L.. "Ann2RDF: Moving annotations to semantic web". 2015.
    10.1145/2837185.2837253
  29. Ruano, A.E.; Ferreira, P.M.; Cabrita, C.; Matos, S.. "Training neural networks and neuro-fuzzy systems: A unified view". 2002.
Artigo em revista
  1. Richard A A Jonker; Tiago Almeida; Rui Antunes; João R Almeida; Sérgio Matos. "Multi-head CRF classifier for biomedical multi-class named entity recognition on Spanish clinical notes". Database (2024): https://doi.org/10.1093/database/baae068.
    10.1093/database/baae068
  2. Tiago Almeida; Richard A A Jonker; Rui Antunes; João R Almeida; Sérgio Matos. "Towards discovery: an end-to-end system for uncovering novel biomedical relations". Database (2024): https://doi.org/10.1093/database/baae057.
    10.1093/database/baae057
  3. Sara Duarte-Pereira; Sérgio Matos; José Luís Oliveira; Raquel M. Silva. "Study of NAD-interacting proteins highlights the extent of NAD regulatory roles in the cell and its potential as a therapeutic target". Journal of Integrative Bioinformatics (2023): https://doi.org/10.1515/jib-2022-0049.
    10.1515/jib-2022-0049
  4. João Figueira Silva; Sérgio Matos. "Modelling patient trajectories using multimodal information". Journal of Biomedical Informatics (2022): https://doi.org/10.1016/j.jbi.2022.104195.
    10.1016/j.jbi.2022.104195
  5. Jorge Miguel Silva; Diogo Pratas; Tânia Caetano; Sérgio Matos. "The complexity landscape of viral genomes". GigaScience (2022): https://doi.org/10.1093/gigascience/giac079.
    10.1093/gigascience/giac079
  6. Tiago Almeida; Rui Antunes; João F. Silva; João R Almeida; Sérgio Matos. "Chemical identification and indexing in PubMed full-text articles using deep learning and heuristics". Database (2022): https://doi.org/10.1093/database/baac047.
    10.1093/database/baac047
  7. Sara Duarte-Pereira; Olga Fajarda; Sérgio Matos; José Luís Oliveira; Raquel Monteiro Silva. "NAPRT Expression Regulation Mechanisms: Novel Functions Predicted by a Bioinformatics Approach". Genes (2021): https://doi.org/10.3390/genes12122022.
    10.3390/genes12122022
  8. Almeida, João Rafael; Silva, João Figueira; Matos, Sérgio; Oliveira, José Luís. "A two-stage workflow to extract and harmonize drug mentions from clinical notes into observational databases". Journal of Biomedical Informatics 120 (2021): 103849. http://dx.doi.org/10.1016/j.jbi.2021.103849.
    10.1016/j.jbi.2021.103849
  9. Silva, Jorge Miguel; Pratas, Diogo; Antunes, Rui; Matos, Sérgio; Pinho, Armando J.. "Automatic analysis of artistic paintings using information-based measures". Pattern Recognition 114 (2021): 107864. http://dx.doi.org/10.1016/j.patcog.2021.107864.
    10.1016/j.patcog.2021.107864
  10. João Figueira Silva; João Rafael Almeida; Sérgio Matos. "Extraction of Family History Information From Clinical Notes: Deep Learning and Heuristics Approach". JMIR Medical Informatics (2020): https://doi.org/10.2196/22898.
    10.2196/22898
  11. Jorge Miguel Silva; Eduardo Pinho; Sérgio Matos; D. Pratas. "Statistical Complexity Analysis of Turing Machine tapes with Fixed Algorithmic Complexity Using the Best-Order Markov Model". Entropy (2020): https://www.mdpi.com/1099-4300/22/1/105.
    10.3390/e22010105
  12. Antunes, Rui; Matos, Sérgio. "Extraction of chemical–protein interactions from the literature using neural networks and narrow instance representation". Database (2019): http://dx.doi.org/10.1093/database/baz095.
    10.1093/database/baz095
  13. Islamaj Dogan, Rezarta; Kim, Sun; Chatr-aryamontri, Andrew; Wei, Chih-Hsuan; Comeau, Donald C; Antunes, Rui; Matos, Sérgio; et al. "Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine". Database 2019 (2019): http://dx.doi.org/10.1093/database/bay147.
    10.1093/database/bay147
  14. Sérgio Matos. "Configurable web-services for biomedical document annotation". Journal of Cheminformatics 10 1 (2018): https://doi.org/10.1186/s13321-018-0317-4.
    10.1186/s13321-018-0317-4
  15. Pedrosa, Micael; Silva, Jorge Miguel; Silva, João Figueira; Matos, Sérgio; Costa, Carlos. "SCREEN-DR: Collaborative platform for diabetic retinopathy". International Journal of Medical Informatics 120 (2018): 137-146. http://dx.doi.org/10.1016/j.ijmedinf.2018.10.005.
    10.1016/j.ijmedinf.2018.10.005
  16. Turner, R. D.; Birring, S. S.; Darmalingam, M.; Hooper, R. L.; Kunst, H.; Matos, S.; Bothamley, G. H.. "Daily cough frequency in tuberculosis and association with household infection". The International Journal of Tuberculosis and Lung Disease 22 8 (2018): 863-870. http://dx.doi.org/10.5588/ijtld.17.0652.
    10.5588/ijtld.17.0652
  17. Antunes, Rui; Matos, Sérgio. "Supervised Learning and Knowledge-Based Approaches Applied to Biomedical Word Sense Disambiguation". Journal of Integrative Bioinformatics 14 4 (2017): http://dx.doi.org/10.1515/jib-2017-0051.
    10.1515/jib-2017-0051
  18. Matos, Sérgio; Antunes, Rui. "Protein-Protein Interaction Article Classification Using a Convolutional Recurrent Neural Network with Pre-trained Word Embeddings". Journal of Integrative Bioinformatics 14 4 (2017): http://dx.doi.org/10.1515/jib-2017-0055.
    10.1515/jib-2017-0055
  19. Spinou, A.; Lee, K.K.; Sinha, A.; Elston, C.; Loebinger, M.R.; Wilson, R.; Chung, K.F.; et al. "The Objective Assessment of Cough Frequency in Bronchiectasis". Lung 195 5 (2017): 575-585. http://www.scopus.com/inward/record.url?eid=2-s2.0-85023773419&partnerID=MN8TOARS.
    10.1007/s00408-017-0038-x
  20. Viana-Ferreira, C.; Guerra, A.; Silva, J.F.; Matos, S.; Costa, C.. "An Intelligent Cloud Storage Gateway for Medical Imaging". Journal of Medical Systems 41 9 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85027055714&partnerID=MN8TOARS.
    10.1007/s10916-017-0790-8
  21. Lee, K.K.; Matos, S.; Ward, K.; Rafferty, G.F.; Moxham, J.; Evans, D.H.; Birring, S.S.. "Sound: A non-invasive measure of cough intensity". BMJ Open Respiratory Research 4 1 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85019456990&partnerID=MN8TOARS.
    10.1136/bmjresp-2017-000178
  22. Kim, Sun; Dogan, Rezarta Islamaj; Chatr-Aryamontri, Andrew; Chang, Christie S.; Oughtred, Rose; Rust, Jennifer; Batista-Navarro, Riza; et al. "BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID". Database-the Journal of Biological Databases and Curation (2016): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000383834200001&KeyUID=WOS:000383834200001.
    10.1093/database/baw121
  23. Wang, Q.; Abdul, S.S.; Almeida, L.; Ananiadou, S.; Balderas-Martínez, Y.I.; Batista-Navarro, R.; Campos, D.; et al. "Overview of the interactive task in BioCreative V". Database 2016 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-85009926974&partnerID=MN8TOARS.
    10.1093/database/baw119
  24. Matos, Sergio; Campos, David; Pinho, Renato; Silva, Raquel M.; Mort, Matthew; Cooper, David N.; Oliveira, Jose Luis. "Mining clinical attributes of genomic variants through assisted literature curation in Egas". Database-the Journal of Biological Databases and Curation (2016): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000381519300001&KeyUID=WOS:000381519300001.
    10.1093/database/baw096
  25. Viana-Ferreira, C.; Ribeiro, L.; Matos, S.; Costa, C.. "Pattern recognition for cache management in distributed medical imaging environments". International Journal of Computer Assisted Radiology and Surgery (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84938651646&partnerID=MN8TOARS.
    10.1007/s11548-015-1272-4
  26. Vanegas, J. A.; Matos, S.; Gonzalez, F.; Oliveira, J. L.. "An Overview of Biomolecular Event Extraction from Scientific Documents". Computational and Mathematical Methods in Medicine (2015): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000364704100001&KeyUID=WOS:000364704100001.
    10.1155/2015/571381
  27. Viana-Ferreira, Carlos; Matos, Sergio; Costa, Carlos. "Long-term prefetching for cloud medical imaging repositories.". Studies in health technology and informatics 210 (2015): 1028-30. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:25991361&KeyUID=MEDLINE:25991361.
  28. Krallinger, Martin; Rabal, Obdulia; Leitner, Florian; Vazquez, Miguel; Salgado, David; Lu, Zhiyong; Leaman, Robert; et al. "The CHEMDNER corpus of chemicals and drugs and its annotation principles.". Journal of cheminformatics 7 Suppl 1 Te (2015): S2-S2. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:25810773&KeyUID=MEDLINE:25810773.
    10.1186/1758-2946-7-S1-S2
  29. Campos, David; Matos, Sergio; Oliveira, Jose L. "A document processing pipeline for annotating chemical entities in scientific documents.". Journal of cheminformatics 7 Suppl 1 Te (2015): S7-S7. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:25810778&KeyUID=MEDLINE:25810778.
    10.1186/1758-2946-7-S1-S7
  30. Coelho, E.D.; Arrais, J.P.; Matos, S.; Pereira, C.; Rosa, N.; Correia, M.J.; Barros, M.; Oliveira, J.L.. "Computational prediction of the human-microbial oral interactome". BMC Systems Biology 8 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84897570043&partnerID=MN8TOARS.
    10.1186/1752-0509-8-24
  31. Prieto, V.M.; Matos, S.; Álvarez, M.; Cacheda, F.; Oliveira, J.L.. "Twitter: A good place to detect health conditions". PLoS ONE 9 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84900419026&partnerID=MN8TOARS.
    10.1371/journal.pone.0086191
  32. Campos, D.; Bui, Q.-C.; Matos, S.; Oliveira, J.L.. "TrigNER: Automatically optimized biomedical event trigger recognition on scientific documents". Source Code for Biology and Medicine 9 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84892661802&partnerID=MN8TOARS.
    10.1186/1751-0473-9-1
  33. Santos, J.C.; Matos, S.. "Analysing Twitter and web queries for flu trend prediction". Theoretical Biology and Medical Modelling 11 SUPPL.1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84900339672&partnerID=MN8TOARS.
    10.1186/1742-4682-11-S1-S6
  34. Campos, D.; Lourenço, J.; Matos, S.; Oliveira, J.L.. "Egas: a collaborative and interactive document curation platform.". Database : the journal of biological databases and curation 2014 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84906539811&partnerID=MN8TOARS.
  35. Campos, D.; Matos, S.; Oliveira, J.L.. "A modular framework for biomedical concept recognition". BMC Bioinformatics 14 1 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84884469671&partnerID=MN8TOARS.
    10.1186/1471-2105-14-281
  36. Yousaf, N.; Monteiro, W.; Matos, S.; Birring, S.S.; Pavord, I.D.. "Cough frequency in health and disease". European Respiratory Journal 41 1 (2013): 241-243. http://www.scopus.com/inward/record.url?eid=2-s2.0-84872173633&partnerID=MN8TOARS.
    10.1183/09031936.00089312
  37. Lee, K.K.; Matos, S.; Evans, D.H.; White, P.; Pavord, I.D.; Birring, S.S.. "A longitudinal assessment of acute cough". American Journal of Respiratory and Critical Care Medicine 187 9 (2013): 991-997. http://www.scopus.com/inward/record.url?eid=2-s2.0-84877111516&partnerID=MN8TOARS.
    10.1164/rccm.201209-1686OC
  38. Campos, D.; Matos, S.; Oliveira, J.L.. "Gimli: Open source and high-performance biomedical name recognition". BMC Bioinformatics 14 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84873744177&partnerID=MN8TOARS.
    10.1186/1471-2105-14-54
  39. Nunes, T.; Campos, D.; Matos, S.; Oliveira, J.L.. "BeCAS: Biomedical concept recognition services and visualization". Bioinformatics 29 15 (2013): 1915-1916. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880552535&partnerID=MN8TOARS.
    10.1093/bioinformatics/btt317
  40. Prieto, V.M.; Matos, S.; Álvarez, M.; Cacheda, F.; Oliveira, J.L.. "Analysing Relevant Diseases from Iberian Tweets". Advances in Intelligent Systems and Computing 222 (2013): 69-76. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880375780&partnerID=MN8TOARS.
    10.1007/978-3-319-00578-2_10
  41. Matos, S.; Araújo, H.; Oliveira, J.L.. "Structuring and exploring the biomedical literature using latent semantics". Advances in Intelligent Systems and Computing 217 (2013): 609-616. http://www.scopus.com/inward/record.url?eid=2-s2.0-84891135595&partnerID=MN8TOARS.
    10.1007/978-3-319-00551-5_72
  42. Carlos, Jose; Matos, Sergio; Ortuno, F; Rojas, I. "Predicting Flu Incidence from Portuguese Tweets". Proceedings Iwbbio 2013: International Work-Conference on Bioinformatics and Biomedical Engineering (2013): 11-18.
  43. Correia, Maria; Coelho, Edgar D; Arrais, Joel P.; Matos, Sérgio; Rosa, Nuno; Barros, Marlene; Oliveira, José Luís. "Computational Approach to Predict Inter-Species Oral Protein-Protein Interactions". PROCEEDINGS IWBBIO 2013: INTERNATIONAL WORK-CONFERENCE ON BIOINFORMATICS AND BIOMEDICAL ENGINEERING 2013 (2013): 193-194.
    Publicado
  44. Campos, D.; Matos, S.; Lewin, I.; Oliveira, J.L.; Rebholz-Schuhmann, D.. "Harmonization of gene/protein annotations: Towards a gold standard medline". Bioinformatics 28 9 (2012): 1253-1261. http://www.scopus.com/inward/record.url?eid=2-s2.0-84860473173&partnerID=MN8TOARS.
    10.1093/bioinformatics/bts125
  45. Lee, K.K.; Savani, A.; Matos, S.; Evans, D.H.; Pavord, I.D.; Birring, S.S.. "Four-hour cough frequency monitoring in chronic cough". Chest 142 5 (2012): 1237-1243. http://www.scopus.com/inward/record.url?eid=2-s2.0-84868611639&partnerID=MN8TOARS.
    10.1378/chest.11-3309
  46. Matos, S.; Oliveira, J.L.. "Prioritizing literature search results using a training set of classified documents". Advances in Intelligent and Soft Computing 93 (2011): 381-388. http://www.scopus.com/inward/record.url?eid=2-s2.0-80052949641&partnerID=MN8TOARS.
    10.1007/978-3-642-19914-1_49
  47. Lu, Z.; Kao, H.-Y.; Wei, C.-H.; Huang, M.; Liu, J.; Kuo, C.-J.; Hsu, C.-N.; et al. "The gene normalization task in BioCreative III". BMC Bioinformatics 12 SUPPL. 8 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-80052774027&partnerID=MN8TOARS.
    10.1186/1471-2105-12-S8-S2
  48. Krallinger, M.; Vazquez, M.; Leitner, F.; Salgado, D.; Chatr-aryamontri, A.; Winter, A.; Perfetto, L.; et al. "The Protein-Protein Interaction tasks of BioCreative III: Classification/ranking of articles and linking bio-ontology concepts to full text". BMC Bioinformatics 12 SUPPL. 8 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-80053423937&partnerID=MN8TOARS.
    10.1186/1471-2105-12-S8-S3
  49. Lee, K. K.; Matos, S.; Evans, D. H.; Pavord, I. D.; Birring, S. S.. "ACUTE COUGH: A LONGITUDINAL OBSERVATIONAL STUDY". Thorax 66 (2011): A65-A66.
    10.1136/thoraxjnl-2011-201054b.144
  50. Lee, K. K.; Matos, S.; Evans, D. H.; Pavord, I. D.; Birring, S. S.. "PREDICTORS OF 24-H COUGH FREQUENCY IN ACUTE COUGH". Thorax 66 (2011): A64-A64.
    10.1136/thoraxjnl-2011-201054b.140
  51. Matos, S.; Oliveira, J.L.. "Classification methods for finding articles describing protein-protein interactions in PubMed.". Journal of integrative bioinformatics 8 3 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-84855546021&partnerID=MN8TOARS.
  52. Campos, D.; Matos, S.; Oliveira, J.L.. "Recognition of gene/protein names using conditional random fields". KDIR 2010 - Proceedings of the International Conference on Knowledge Discovery and Information Retrieval (2010): 275-280. http://www.scopus.com/inward/record.url?eid=2-s2.0-78651435591&partnerID=MN8TOARS.
  53. Yousaf, N.; Monteiro, W.; Parker, D.; Matos, S.; Birring, S.; Pavord, I.D.. "Long-term low-dose erythromycin in patients with unexplained chronic cough: A double-blind placebo controlled trial". Thorax 65 12 (2010): 1107-1110. http://www.scopus.com/inward/record.url?eid=2-s2.0-78649636793&partnerID=MN8TOARS.
    10.1136/thx.2010.142711
  54. Lee, K. K.; Savani, A.; Matos, S.; Woods, C.; Pavord, I. D.; Birring, S. S.. "4 H COUGH FREQUENCY MONITORING WITH THE LEICESTER COUGH MONITOR". Thorax 65 (2010): A54-A54.
    10.1136/thx.2010.150946.18
  55. Matos, S.; Arrais, J.P.; Maia-Rodrigues, J.; Oliveira, J.L.. "Concept-based query expansion for retrieving gene related publications from MEDLINE". BMC Bioinformatics 11 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77951569837&partnerID=MN8TOARS.
    10.1186/1471-2105-11-212
  56. Matos, S.; Barreiro, A.; Oliveira, J.L.. "Syntactic parsing for bio-molecular event detection from scientific literature". Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5816 LNAI (2009): 79-85. http://www.scopus.com/inward/record.url?eid=2-s2.0-71049149316&partnerID=MN8TOARS.
    10.1007/978-3-642-04686-5_7
  57. Yousaf, N; Matos, S; Birring, SS; Pavord, ID. "FACTORS AFFECTING COUGH FREQUENCY IN A MIXED POPULATION". Thorax 64 (2009): A151-A151.
    10.1136/thx.2009.127183t
  58. Birring, S.S.; Mann, V.M.; Matos, S.; Yousaf, N.; Wood, C.; Fleming, T.; Evans, D.H.; Morice, A.H.; Pavord, I.D.. "The Leicester cough monitor: A semi-automated, semi-validated cough detection system? (European Respiratory Journal (2008) 32, (530-531))". European Respiratory Journal 33 1 (2009): http://www.scopus.com/inward/record.url?eid=2-s2.0-58849144267&partnerID=MN8TOARS.
    10.1183/09031936.50060808
  59. Birring, S.S.; Fleming, T.; Matos, S.; Raj, A.A.; Evans, D.H.; Pavord, I.D.. "The Leicester Cough Monitor: Preliminary validation of an automated cough detection system in chronic cough". European Respiratory Journal 31 5 (2008): 1013-1018. http://www.scopus.com/inward/record.url?eid=2-s2.0-47049099230&partnerID=MN8TOARS.
    10.1183/09031936.00057407
  60. Birring, S.S.; Mann, V.M.; Matos, S.; Yousaf, N.; Wood, C.; Fleming, T.; Evans, D.H.; Morice, A.H.; Pavord, I.D.. "From the authors". European Respiratory Journal 32 2 (2008): 530-531. http://www.scopus.com/inward/record.url?eid=2-s2.0-58849131973&partnerID=MN8TOARS.
    10.1183/09031936.00060808
  61. Matos, S.; Birring, S.S.; Pavord, I.D.; Evans, D.H.. "An automated system for 24-h monitoring of cough frequency: The Leicester cough monitor". IEEE Transactions on Biomedical Engineering 54 8 (2007): 1472-1479. http://www.scopus.com/inward/record.url?eid=2-s2.0-34447509649&partnerID=MN8TOARS.
    10.1109/TBME.2007.900811
  62. Birring, S.S.; Ing, A.J.; Chan, K.; Cossa, G.; Matos, S.; Morgan, M.D.L.; Pavord, I.D.. "Obstructive sleep apnoea: A cause of chronic cough". Cough 3 1 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-34547183940&partnerID=MN8TOARS.
    10.1186/1745-9974-3-7
  63. Birring, S.S.; Matos, S.; Patel, R.B.; Prudon, B.; Evans, D.H.; Pavord, I.D.. "Cough frequency, cough sensitivity and health status in patients with chronic cough". Respiratory Medicine 100 6 (2006): 1105-1109. http://www.scopus.com/inward/record.url?eid=2-s2.0-33646029390&partnerID=MN8TOARS.
    10.1016/j.rmed.2005.09.023
  64. Matos, S.; Birring, S.S.; Pavord, I.D.; Evans, D.H.. "Detection of cough signals in continuous audio recordings using hidden Markov models". IEEE Transactions on Biomedical Engineering 53 6 (2006): 1078-1083. http://www.scopus.com/inward/record.url?eid=2-s2.0-33744988731&partnerID=MN8TOARS.
    10.1109/TBME.2006.873548
  65. Matos, S.; Ruano, M.G.; Ruano, A.E.; Evans, D.H.. "Neural network classification of cerebral embolic signals". Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings 2 (2001): 1761-1764. http://www.scopus.com/inward/record.url?eid=2-s2.0-61549098434&partnerID=MN8TOARS.
    10.1109/IEMBS.2001.1020560
Capítulo de livro
  1. Tiago Almeida; Sérgio Matos. "SPARe: Supercharged Lexical Retrievers on GPU with Sparse Kernels". 2024.
    10.1007/978-3-031-56063-7_33
  2. Richard Adolph Aires Jonker; Roshan Poudel; Olga Fajarda; José Luís Oliveira; Rui Pedro Lopes; Sérgio Matos. "DyPrune: Dynamic Pruning Rates for Neural Networks". 2023.
    10.1007/978-3-031-49008-8_12
  3. Jorge Miguel Silva; Diogo Pratas; Sérgio Matos. "Exploring Kolmogorov Complexity Approximations for Data Analysis: Insights and Applications". 2023.
    10.1007/978-3-031-36007-7_12
  4. Jorge Miguel Silva; Diogo Pratas; Tânia Caetano; Sérgio Matos. "Feature-Based Classification of Archaeal Sequences Using Compression-Based Methods". 309-320. Springer International Publishing, 2022.
    10.1007/978-3-031-04881-4_25
  5. João Rafael Almeida; João Figueira Silva; Alejandro Pazos Sierra; Sergio Matos; José Luís Oliveira. "Leveraging Clinical Notes for Enhancing Decision-Making Systems with Relevant Patient Information". 2021.
    10.1007/978-3-030-72379-8_26
  6. Almeida, João Rafael; Silva, João Figueira; Matos, Sérgio; Pazos, Alejandro; Oliveira, José Luís. "A Recommender System to Help Refining Clinical Research Studies". In Studies in Health Technology and Informatics. IOS Press, 2021.
    10.3233/shti210174
  7. Alina Trifan; Rui Antunes; Sérgio Matos; Jose Luís Oliveira. "Understanding Depression from Psycholinguistic Patterns in Social Media Texts". 402-409. Springer International Publishing, 2020.
    10.1007/978-3-030-45442-5_50
  8. Tiago Almeida; Sérgio Matos. "Calling Attention to Passages for Biomedical Question Answering". 69-77. Springer International Publishing, 2020.
    10.1007/978-3-030-45442-5_9
  9. Matos, Sérgio. "Improving Document Prioritization for Protein-Protein Interaction Extraction Using Shallow Linguistics and Word Embeddings". In 11th International Conference on Practical Applications of Computational Biology & Bioinformatics, 43-49. Springer International Publishing, 2017.
    10.1007/978-3-319-60816-7_6
  10. Antunes, Rui; Matos, Sérgio. "Biomedical Word Sense Disambiguation with Word Embeddings". In 11th International Conference on Practical Applications of Computational Biology & Bioinformatics, 273-279. Springer International Publishing, 2017.
    10.1007/978-3-319-60816-7_33
  11. Sernadela, P.; Lopes, P.; Campos, D.; Matos, S.; Oliveira, J.L.. "A semantic layer for unifying and exploring biomedical document curation results". In 11th International Conference on Practical Applications of Computational Biology & Bioinformatics. 2015.
  12. Nunes, Tiago; Matos, Sérgio; Oliveira, José Luís. "Extracting Sentences Describing Biomolecular Events from the Biomedical Literature". In Distributed Computing and Artificial Intelligence, 11th International Conference, 417-424. Springer International Publishing, 2014.
    10.1007/978-3-319-07593-8_48
  13. Arrais, J; Pereira, JE; Lopes, P; Matos, S; Oliveira, JL. "Improving Cross Mapping in Biomedical Databases". 69-76. 2010.
    10.1007/978-3-642-13214-8_9
  14. Matos, S; Arrais, JP; Oliveira, JL. "Expanding Gene-Based PubMed Queries". 61-68. 2010.
    10.1007/978-3-642-13214-8_8

Outros

Outra produção
  1. End-to-End Extraction of Family History Information from Clinical Notes Using Deep Learning and Heuristics (Preprint). 2020. João Figueira Silva; João Rafael Almeida; Sérgio Matos. https://doi.org/10.2196/preprints.22898.
    10.2196/preprints.22898
  2. Corpógrafo and NooJ: using linguistic resources to obtain aligned concordances from corpora. In this presentation we will describe the integration of NooJ within the Corpógrafo environment. We will demonstrate how the NooJ corpus processing engine and linguistic resources are used in Corpógrafo for extracting lexical bundles and for obtaining simple concordances from corpora and aligned concordances from parallel corpora, and how we are implementing the search for "parallel" concordances. 2008. Matos, Sérgio; Barreiro, Anabela; Maia, Belinda. http://hdl.handle.net/10400.26/127.
Atividades

Orientação

Título / Tema
Papel desempenhado 		Curso (Tipo)
Instituição / Organização
2023/09 - Atual Domain knowledge enhanced generative question answering using Transformers and Knowledge Graphs
Orientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro, Portugal
2022/10 - Atual Value creation for healthcare ecosystems through artificial intelligence applied to physician-to-physician communication
Orientador
 Inovação em Empresas (Doutoramento)
Universidade de Aveiro, Portugal
2020/09/01 - Atual A jointly trained neural pipeline for biomedical question answering
Orientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro, Portugal
2022/09 - 2023/03/28 Dynamic neural network architecture tuning during training
Orientador
 Ciência de Dados (Mestrado)
Universidade de Aveiro, Portugal
2015 - 2023/03/07 Biomedical information extraction with natural language processing and machine learning methods
Orientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018 - 2023 Algorithmic information approximations in data analysis
Orientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2021/10 - 2022/12 Dense and hybrid models for information retrieval
Orientador
 Mestrado em Engenharia Informática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2021/01 - 2022/07 Collection, extraction and classification of opinions on playful applications for health and well-being
Orientador
 Mestrado em Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018 - 2022/06 Multimodal Content Fusion For Modelling Patient Trajectories
Orientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2020/10 - 2021/12 Collaborative annotation and mapping tool for clinical concepts
Orientador
 Mestrado em Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2020/10 - 2021/12 @Twitter: tracking reactions to political news
Orientador
 Mestrado em Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2019/09/01 - 2021/02/17 Biomedical knowledge discovery through graph embeddings
Orientador
 Mestrado Integrado em Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2019/10 - 2020/07 Using structured data to answer consumers health-related questions
Orientador
 Mestrado em Engenharia Informática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2019 - 2019 Predicting the behaviour of water distribution networks with machine learning methods
Orientador
 Engenharia Informática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2019 - 2019 Neural Information Retrieval for Biomedical Question-Answering
Orientador
 Engenharia Informática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018 - 2018 Web-based tool for searching table contents
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018 - 2018 Sentiment analysis in web comments
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018 - 2018 Recognition of textual mentions of genetic variants using deep learning
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2018 - 2018 Information extraction from diabetes clinical reports
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2017 - 2017 Deep learning for identification of pathogenic genetic mutations
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2016 - 2016 Automatic and interactive annotation of PDF documents
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2016 - 2016 Automatic knowledge base construction from unstructured text
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2015 - 2015 Graph-based methods for biomedical concept disambiguation
Orientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2010 - 2015 Feature Selection for Enhanced Extraction of Information
Coorientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2014 - 2014 Aplicação e Serviços Web para Análise da Tosse em Pacientes Crónicos
Orientador
 Sistemas de Informação (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2014 - 2014 Biomedical literature web annotation and curation
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2014 - 2014 Identification of health concepts in social networks
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2009 - 2014 Mining biomedical information from scientific literature
Coorientador
 Engenharia Informática (Doutoramento)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2013 - 2013 A phrase-based information retrieval system for biomedical corpora
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2013 - 2013 Platform for chronic respiratory disease patient management
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2012 - 2012 Exploring biomedical literature using latent semantic indexing
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal
2012 - 2012 Identification of term co-occurrence in scientific texts
Coorientador
 Engenharia de Computadores e Telemática (Mestrado)
Universidade de Aveiro Departamento de Electrónica Telecomunicações e Informática, Portugal

Organização de evento

Nome do evento
Tipo de evento (Tipo de participação) 		Instituição / Organização
2020/12/01 - 2021/06/30 34th IEEE International Symposium on Computer-Based Medical Systems (IEEE CBMS2021) (2021/06/07 - 2021/06/09)
Conferência (Membro da Comissão Organizadora)
 Universidade de Aveiro, Portugal

Participação em evento

Descrição da atividade
Tipo de evento 		Nome do evento
Instituição / Organização
2017/10/18 - 2017/10/20 BioCreative is a community-wide effort for evaluating text mining and information extraction systems applied to the biomedical domain. The BioCreative workshops bring together stakeholders from the biocuration community with researchers from text mining and natural language processing applied to the biomedical literature.
Oficina (workshop)
 BioCreative VI
2017/04/26 - 2017/04/27 BioCreative is a community-wide effort for evaluating text mining and information extraction systems applied to the biomedical domain. The BioCreative workshops bring together stakeholders from the biocuration community with researchers from text mining and natural language processing applied to the biomedical literature.
Oficina (workshop)
 BioCreative V.5
2015/09/09 - 2015/09/11 BioCreative is a community-wide effort for evaluating text mining and information extraction systems applied to the biomedical domain. The BioCreative workshops bring together stakeholders from the biocuration community with researchers from text mining and natural language processing applied to the biomedical literature.
Oficina (workshop)
 BioCreative V
2013/10/07 - 2013/10/09 BioCreative is a community-wide effort for evaluating text mining and information extraction systems applied to the biomedical domain. The BioCreative workshops bring together stakeholders from the biocuration community with researchers from text mining and natural language processing applied to the biomedical literature.
Oficina (workshop)
 BioCreative IV
2012/07/19 - 2012/07/25 Escola de verão em Machine Learning, participação como monitor
Outro
 2nd Lisbon Machine Learning School
2012/05/02 - 2012/05/05 International School on Semantic Web Applications and Technologies for the Life Sciences
Oficina (workshop)
 SWAT4LS 2012
2011/09/19 - 2011/09/20 OpenPHACTS/GEN2PHEN Workshop "Solving Bottlenecks in Data Sharing in the Life Sciences"
Oficina (workshop)
2011/07/20 - 2011/07/25 Escola de verão em Machine Learning, participação como monitor
Outro
 1st Lisbon Machine Learning School
2010/09/13 - 2010/09/15 BioCreative is a community-wide effort for evaluating text mining and information extraction systems applied to the biomedical domain. The BioCreative workshops bring together stakeholders from the biocuration community with researchers from text mining and natural language processing applied to the biomedical literature.
Oficina (workshop)
 BioCreative III
2009/10/07 - 2009/10/09 BioCreative is a community-wide effort for evaluating text mining and information extraction systems applied to the biomedical domain. The BioCreative workshops bring together stakeholders from the biocuration community with researchers from text mining and natural language processing applied to the biomedical literature.
Oficina (workshop)
 BioCreative II.5

Arbitragem científica em conferência

Nome da conferência Local da conferência
2023 - Atual ACL - Annual Meeting of the Association for Computational Linguistics
2023 - Atual SIGIR - International ACM SIGIR Conference on Research and Development in Information Retrieval
2023 - Atual EMNLP - Conference on Empirical Methods in Natural Language Processing
2020 - Atual ECIR - European Conference on Information Retrieval

Revisão ad hoc de artigos em revista

Nome da revista (ISSN) Editora
2023 - Atual JMIR AI (2817-1705) JMIR
2022 - Atual JMIR AI JMIR
2019 - Atual Scientific Reports (2045-2322) Nature
2018 - Atual International Journal of Medical Informatics (1872-8243) Elsevier
2018 - Atual Applied Sciences (2076-3417) MDPI
2018 - Atual IEEE Journal of Biomedical and Health Informatics IEEE
2017 - Atual Computer Methods and Programs in Biomedicine (1872-7565) Elsevier
2017 - Atual Artificial Intelligence in Medicine (1873-2860) Elsevier
2017 - Atual Briefings in Bioinformatics (1477-4054) Oxford Academic
2016 - Atual Information Sciences (1872-6291) Elsevier
2016 - Atual IEEE Access IEEE
2016 - Atual Journal of Cheminformatics (1758-2946) BMC
2015 - Atual Bioinformatics (1367-4811) Oxford Academic
2015 - Atual Database (1758-0463) Oxford Academic
2014 - Atual IEEE Transactions on Biomedical Engineering IEEE
2014 - Atual Journal of Biomedical Semantics (2041-1480) BMC
2014 - Atual BMC Bioinformatics (1471-2105) BMC
2013 - Atual PLoS ONE (1932-6203) PLOS
2023 - 2023 Scientific Data (2052-4463) Nature
2020 - 2020 JMIR Medical Informatics (2291-9694) JMIR
2019 - 2020 Applied Sciences MDPI
2018 - 2020 Sensors (1424-8220) MDPI
2018 - 2018 Computational Biology and Chemistry (1476-928X) Elsevier
2018 - 2018 Annals of Biomedical Engineering (1573-9686) Springer
2017 - 2017 PeerJ PeerJ
2017 - 2017 Computational and Mathematical Methods in Medicine Hindawi
2017 - 2017 Computers & Geosciences (1873-7803) Elsevier
2016 - 2016 Computer Speech & Language (1095-8363) Elsevier
2015 - 2016 Computers and Electronics in Agriculture (1872-7107) Elsevier
2015 - 2015 Biosystems (1872-8324) Elsevier
2015 - 2015 Software: Practice and Experience Wiley
2014 - 2014 Frontiers of Information Technology & Electronic Engineering (2095-9230) Springer
2014 - 2014 BioMed Research International Hindawi
2013 - 2013 Information Retrieval Journal (2948-2984) Springer
2007 - 2008 Computers and Electronics in Agriculture (1872-7107) Elsevier
Distinções

Prémio

1998 Merit Scholarship
Universidade do Algarve, Portugal

Outra distinção

2013 Bolsa Investigador FCT
Fundação para a Ciência e a Tecnologia, Portugal