João Rafael Almeida

According to our database, João Rafael Almeida authored at least 50 papers between 2018 and 2024.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2024

Multi-head CRF classifier for biomedical multi-class named entity recognition on Spanish clinical notes.

Richard A. A. Jonker, Tiago Melo Almeida, Rui Antunes, João Rafael Almeida, Sérgio Matos

Database J. Biol. Databases Curation, January, 2024

Towards discovery: an end-to-end system for uncovering novel biomedical relations.

Tiago Melo Almeida, Richard Adolph Aires Jonker, Rui Antunes, João Rafael Almeida, Sérgio Matos

Database J. Biol. Databases Curation, January, 2024

Enhancing metagenomic classification with compression-based features.

Jorge Miguel Silva, João Rafael Almeida

Artif. Intell. Medicine, 2024

BIT.UA at BioASQ 12: From Retrieval to Answer Generation.

Tiago Melo Almeida, Richard A. A. Jonker, João António Reis, João Rafael Almeida, Sérgio Matos

Proceedings of the Working Notes of the Conference and Labs of the Evaluation Forum (CLEF 2024), 2024

A comprehensive study of databases to assess the reliability of metagenomic tools.

Inês Branco Martins, Jorge Miguel Silva, João Rafael Almeida

Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2024

HealthDBFinder: a question-answering task for health database discovery.

João Rafael Almeida, Jorge Miguel Silva, Luís Carlos Afonso, Tiago Melo Almeida, Rui Antunes, Richard A. A. Jonker, João António Reis, Dimitri Silva, Sérgio Matos, José Luís Oliveira

Proceedings of the 37th IEEE International Symposium on Computer-Based Medical Systems, 2024

Assessing the feasibility of observational data sources for multicenter clinical studies.

João Rafael Almeida, Peter R. Rijnbeek, Maxim Moinat, José Luís Oliveira

Proceedings of the 37th IEEE International Symposium on Computer-Based Medical Systems, 2024

2023

Methodology to identify a gene expression signature by merging microarray datasets.

Olga Fajarda, João Rafael Almeida, Sara Duarte-Pereira, Raquel M. Silva, José Luís Oliveira

Comput. Biol. Medicine, June, 2023

Querying semantic catalogues of biomedical databases.

Arnaldo Pereira, João Rafael Almeida, Rui Pedro Lopes, José Luís Oliveira

J. Biomed. Informatics, January, 2023

Chemical identification and indexing in full-text articles: an overview of the NLM-Chem track at BioCreative VII.

Robert Leaman, Rezarta Islamaj, Virginia Adams, Mohammed Alliheedi, João Rafael Almeida, Rui Antunes, Robert Bevan, Yung-Chun Chang, Arslan Erdengasileng, Matthew Hodgskiss, Ryuki Ida, Hyunjae Kim, Keqiao Li, Robert E. Mercer, Lukrécia Mertová, Ghadeer Mobasher, Hoo-Chang Shin, Mujeen Sung, Tomoki Tsujimura, Wen-Chao Yeh, Zhiyong Lu

Database J. Biol. Databases Curation, 2023

Open Source Solutions for Vulnerability Assessment: A Comparative Analysis.

Dinis Barroqueiro Cruz, João Rafael Almeida, José Luís Oliveira

IEEE Access, 2023

A Reliable and Secure Method for Sharing Genomic Data.

Dinis Barroqueiro Cruz, João Rafael Almeida, Jorge M. Silva, José Luís Oliveira

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

A 20-Year Journey of Tracing the Development of Web Catalogues for Rare Diseases.

João Rafael Almeida, José Luís Oliveira

Proceedings of the Bioinformatics and Biomedical Engineering, 2023

Clinical Data Integration Strategies for Multicenter Studies.

João Rafael Almeida, Alejandro Pazos, José Luís Oliveira

Proceedings of the Technological Innovation for Connected Cyber Physical Spaces, 2023

SecureFASTA: Ensuring privacy and trust when sharing genomic data.

Diniz Cruz, João Rafael Almeida, Jorge Miguel Silva, José Luís Oliveira

Proceedings of the 36th IEEE International Symposium on Computer-Based Medical Systems, 2023

Upscaling Operators of Essential Services Incident Response Teams.

João Paulo Barraca, Cristina Cerqueira, José Filipe Alves, Sara Andrade, António Meireles, João Rafael Almeida

Proceedings of the 36th IEEE International Symposium on Computer-Based Medical Systems, 2023

A FAIR Approach to Real-World Health Data Management and Analysis.

João Rafael Almeida, Jorge Miguel Silva, José Luís Oliveira

Proceedings of the 36th IEEE International Symposium on Computer-Based Medical Systems, 2023

2022

Chemical identification and indexing in PubMed full-text articles using deep learning and heuristics.

Tiago Melo Almeida, Rui Antunes, João Figueira Silva, João Rafael Almeida, Sérgio Matos

Database J. Biol. Databases Curation, 2022

Discovery of Biomedical Databases Through Semantic Questioning.

Arnaldo Pereira, João Rafael Almeida, Rui Pedro Lopes, Alejandro Pazos, José Luís Oliveira

Proceedings of the Challenges of Trustable AI and Added-Value on Health, 2022

Characterizing Genomics Repositories Using Feature-Based Classification.

Jorge Miguel Silva, João Rafael Almeida

Proceedings of the Digital Professionalism in Health and Care: Developing the Workforce, Building the Future, 2022

Preserving Privacy when Querying OMOP CDM Databases.

João Rafael Almeida, João Paulo Barraca, José Luís Oliveira

Proceedings of the Digital Professionalism in Health and Care: Developing the Workforce, Building the Future, 2022

Classifying and discovering genomic sequences in metagenomic repositories.

Jorge Miguel Silva, João Rafael Almeida, José Luís Oliveira

Proceedings of the CENTERIS 2022 - International Conference on ENTERprise Information Systems / ProjMAN - International Conference on Project MANagement / HCist, 2022

The value of compression for taxonomic identification.

Jorge Miguel Silva, João Rafael Almeida

Proceedings of the 35th IEEE International Symposium on Computer-Based Medical Systems, 2022

Visualising Time-evolving Semantic Biomedical Data.

Arnaldo Pereira, João Rafael Almeida, Rui Pedro Lopes, José Luís Oliveira

Proceedings of the 35th IEEE International Symposium on Computer-Based Medical Systems, 2022

Combining heterogeneous patient-level data into tranSMART to support multicentre studies.

João Rafael Almeida, Luís Bastião Silva, Alejandro Pazos, José Luís Oliveira

Proceedings of the 35th IEEE International Symposium on Computer-Based Medical Systems, 2022

A secure architecture for exploring patient-level databases from distributed institutions.

João Rafael Almeida, João Paulo Barraca, José Luís Oliveira

Proceedings of the 35th IEEE International Symposium on Computer-Based Medical Systems, 2022

2021

BIcenter: A collaborative Web ETL solution based on a reflective software approach.

João Rafael Almeida, Leonardo Coelho, José Luís Oliveira

SoftwareX, 2021

A two-stage workflow to extract and harmonize drug mentions from clinical notes into observational databases.

João Rafael Almeida, João Figueira Silva, Sérgio Matos, José Luís Oliveira

J. Biomed. Informatics, 2021

A semi-automatic methodology for analysing distributed and private biobanks.

João Rafael Almeida, Diogo Pratas, José Luís Oliveira

Comput. Biol. Medicine, 2021

A Recommender System to Help Refining Clinical Research Studies.

João Rafael Almeida, João Figueira Silva, Sérgio Matos, Alejandro Pazos, José Luís Oliveira

Proceedings of the Public Health and Informatics, 2021

A Comparative Analysis of Data Platforms for Rare Diseases.

Mariana Sequeira, João Rafael Almeida, José Luís Oliveira

Proceedings of the 34th IEEE International Symposium on Computer-Based Medical Systems, 2021

An Architecture to Define Cohorts over Medical Imaging Datasets.

João Rafael Almeida, Eriksson J. Melicio Monteiro, José Luís Oliveira

Proceedings of the 34th IEEE International Symposium on Computer-Based Medical Systems, 2021

2020

GTO: A toolkit to unify pipelines in genomic and proteomic research.

João Rafael Almeida, Armando J. Pinho, José Luís Oliveira, Olga Fajarda, Diogo Pratas

SoftwareX, 2020

Rule-based extraction of family history information from clinical notes.

João Rafael Almeida, Sérgio Matos

Proceedings of the SAC '20: The 35th ACM/SIGAPP Symposium on Applied Computing, online event, [Brno, Czech Republic], March 30, 2020

Clinical Concept Normalization on Medical Records Using Word Embeddings and Heuristics.

João Figueira Silva, Rui Antunes, João Rafael Almeida, Sérgio Matos

Proceedings of the Digital Personalized Health and Medicine - Proceedings of MIE 2020, Medical Informatics Europe, Geneva, Switzerland, April 28, 2020

A Recommender System Based on Cohorts' Similarity.

João Rafael Almeida, Eriksson J. Melicio Monteiro, Luís A. Bastião Silva, Alejandro Pazos, José Luís Oliveira

Proceedings of the Digital Personalized Health and Medicine - Proceedings of MIE 2020, Medical Informatics Europe, Geneva, Switzerland, April 28, 2020

File Forgery Detection Using a Weighted Rule-Based System.

João Rafael Almeida, Olga Fajarda, José Luís Oliveira

Proceedings of the Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2020

Multi-language Concept Normalisation of Clinical Cohorts.

João Rafael Almeida, José Luís Oliveira

Proceedings of the 33rd IEEE International Symposium on Computer-Based Medical Systems, 2020

A Recommender System to Help Discovering Cohorts in Rare Diseases.

João Rafael Almeida, Eriksson J. Melicio Monteiro, Luís A. Bastião Silva, Alejandro Pazos Sierra, José Luís Oliveira

Proceedings of the 33rd IEEE International Symposium on Computer-Based Medical Systems, 2020

Leveraging Clinical Notes for Enhancing Decision-Making Systems with Relevant Patient Information.

João Rafael Almeida, João Figueira Silva, Alejandro Pazos Sierra, Sérgio Matos, José Luís Oliveira

Proceedings of the Biomedical Engineering Systems and Technologies, 2020

Enhancing Decision-making Systems with Relevant Patient Information by Leveraging Clinical Notes.

João Rafael Almeida, João Figueira Silva, Alejandro Pazos Sierra, Sérgio Matos, José Luís Oliveira

Proceedings of the 13th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2020), 2020

A Computational Platform for Heart Failure Cases Research.

João Rafael Almeida, Pedro Freire, Olga Fajarda, José Luís Oliveira

Proceedings of the 13th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2020), 2020

2019

TASKA: A modular task management system to support health research studies.

João Rafael Almeida, Rosa Gini, Giuseppe Roberto, Peter R. Rijnbeek, José Luís Oliveira

BMC Medical Informatics Decis. Mak., 2019

ETL Framework for Real-Time Business Intelligence over Medical Imaging Repositories.

Tiago Marques Godinho, Rui Lebre, João Rafael Almeida, Carlos Costa

J. Digit. Imaging, 2019

A Weighted Rule-Based Model for File Forgery Detection: UA.PT Bioinformatics at ImageCLEF 2019.

João Rafael Almeida, Pedro Freire, Olga Fajarda, José Luís Oliveira

Proceedings of the Working Notes of CLEF 2019, 2019

GenericCDSS - A Generic Clinical Decision Support System.

João Rafael Duarte de Almeida, José Luís Oliveira

Proceedings of the 32nd IEEE International Symposium on Computer-Based Medical Systems, 2019

Strategies to Access Patient Clinical Data from Distributed Databases.

João Rafael Almeida, Olga Fajarda, Arnaldo Pereira, José Luís Oliveira

Proceedings of the 12th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2019), 2019

2018

Services Orchestration and Workflow Management in Distributed Medical Imaging Environments.

João Rafael Almeida, Tiago Marques Godinho, Luís A. Bastião Silva, Carlos Costa, José Luís Oliveira

Proceedings of the 31st IEEE International Symposium on Computer-Based Medical Systems, 2018

Simplifying the Digitization of Clinical Protocols for Diabetes Management.

João Rafael Almeida, Joana Guimaraes, José Luís Oliveira

Proceedings of the 31st IEEE International Symposium on Computer-Based Medical Systems, 2018

A Modular Workflow Management Framework.

João Rafael Almeida, Ricardo F. Ribeiro, José Luís Oliveira

Proceedings of the 11th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2018), 2018