Francisco M. Couto

154 papers A* 2A 3Misc 8Journal 62Unranked 72
YearRankTypeTitle / Venue / Authors
2026 J jnl
Predicting non-coding RNA function using Artificial Intelligence.
J. Biomed. Informatics
David da Costa Correia, Francisco M. Couto, Hugo F. M. C. Martiniano
2025 J jnl
Enhancing cross-encoders using knowledge graph hierarchy for medical entity linking in zero- and few-shot scenarios.
Knowl. Based Syst.
Fernando Gallego Donoso, Pedro Ruas, Francisco M. Couto, Francisco J. Veredas
2025 — conf
lasigeBioTM at BioASQ25 Task GutBrainIE - Lean Large Language Models with Syntactic Features.
CLEF (Working Notes)
Sofia I. R. Conceição, Paulo R. C. Lopes, Francisco M. Couto
2025 — conf
lasigeBioTM: A Lean Biomedical QA System Empowered by Structured Knowledge.
CLEF (Working Notes)
Paulo R. C. Lopes, Sofia I. R. Conceição, Maria Fernandes, Francisco M. Couto
2024 J jnl
Hybrid X-Linker: Automated Data Generation and Extreme Multi-label Ranking for Biomedical Entity Linking.
CoRR
Pedro Ruas, Fernando Gallego Donoso, Francisco J. Veredas, Francisco M. Couto
2024 — conf
LLM Fine-Tuning With Biomedical Open-Source Data.
CLEF (Working Notes)
Christopher Anaya, Maria Fernandes, Francisco M. Couto
2024 J jnl
Survey on Recommender Systems for Biomedical Items in Life and Health Sciences.
ACM Comput. Surv.
Matilde Pato, Márcia Barros, Francisco M. Couto
2023 J jnl
Chapter Two - Security, privacy, and trust management in DNA computing.
Adv. Comput.
Maria Fernandes, Jérémie Decouchant, Francisco M. Couto
2023 J jnl
DGH-GO: dissecting the genetic heterogeneity of complex diseases using gene ontology.
BMC Bioinform.
Muhammad Asif, Hugo F. M. C. Martiniano, Andre Lamurias, Samina Kausar, Francisco M. Couto
2023 J jnl
K-RET: knowledgeable biomedical relation extraction system.
Bioinform.
Diana F. Sousa, Francisco M. Couto
2023 J jnl
LASIGE and UNICAGE solution to the NASA LitCoin NLP Competition.
CoRR
Pedro Ruas, Diana F. Sousa, André Neves, Carlos Cruz, Francisco M. Couto
2023 — conf
lasigeBioTM at SemEval-2023 Task 7: Improving Natural Language Inference Baseline Systems with Domain Ontologies.
SemEval@ACL
Sofia I. R. Conceição, Diana F. Sousa, Pedro Silvestre, Francisco M. Couto
2022 J jnl
Biomedical Relation Extraction With Knowledge Graph-Based Recommendations.
IEEE J. Biomed. Health Informatics
Diana F. Sousa, Francisco M. Couto
2022 J jnl
NILINKER: Attention-based approach to NIL Entity Linking.
J. Biomed. Informatics
Pedro Ruas, Francisco M. Couto
2021 — conf
AML and AMLC results for OAEI 2021.
OM@ISWC
Daniel Faria, Beatriz Lima, Marta Contreiras Silva, Francisco M. Couto, Catia Pesquita
2021 A* conf
Creating Recommender Systems Datasets in Scientific Fields.
KDD
Márcia Barros, Francisco M. Couto, Matilde Pato, Pedro Ruas
2021 J jnl
Hybrid semantic recommender system for chemical compounds in large-scale datasets.
J. Cheminformatics
Márcia Barros, André Moitinho, Francisco M. Couto
2021 J jnl
Information Retrieval Using Machine Learning for Biomarker Curation in the Exposome-Explorer.
Frontiers Res. Metrics Anal.
Andre Lamurias, Sofia Jesus, Vanessa Neveu, Reza M. Salek, Francisco M. Couto
2021 — conf
LASIGE-BioTM at MESINESP2: entity linking with semantic similarity and extreme multi-label classification on Spanish biomedical documents.
CLEF (Working Notes)
Pedro Ruas, Vitor D. T. Andrade, Francisco M. Couto
2021 — conf
Lasige-BioTM at ProfNER: BiLSTM-CRF and contextual Spanish embeddings for Named Entity Recognition and Tweet Binary Classification.
SMM4H@NAACL-HLT
Pedro Ruas, Vitor D. T. Andrade, Francisco M. Couto
2021 — conf
Post-processing BioBERT And Using Voting Methods for Biomedical Question Answering.
CLEF (Working Notes)
Margarida M. Campos, Francisco M. Couto
2021 — ch.
Using Neural Networks for Relation Extraction from Biomedical Literature.
Artificial Neural Networks, 3rd Edition
Diana F. Sousa, Andre Lamurias, Francisco M. Couto
2020 J jnl
A hybrid approach toward biomedical relation extraction training corpora: combining distant supervision with crowdsourcing.
Database J. Biol. Databases Curation
Diana F. Sousa, Andre Lamurias, Francisco M. Couto
2020 — conf
An Extended Overview of the CLEF 2020 ChEMU Lab: Information Extraction of Chemical Reactions from Patents.
CLEF (Working Notes)
Jiayuan He, Dat Quoc Nguyen, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Ralph Hoessel, Zubair Afzal, Zenan Zhai, Biaoyan Fang, Hiyori Yoshikawa, Ameer Albahem, Jingqi Wang, Yuankai Ren, Zhi Zhang, Yaoyun Zhang, Mai Hoang Dao, Pedro Ruas, Andre Lamurias, Francisco M. Couto, Jenny Copara, Nona Naderi, Julien Knafou, Patrick Ruch, Douglas Teodoro, Daniel M. Lowe, John Mayfield, Abdullatif Köksal, Hilal Dönmez, Elif Özkirimli, Arzucan Özgür, Darshini Mahendran, Gabrielle Gurdin, Nastassja Lewinski, Christina Tang, Bridget T. McInnes, C. S. Malarkodi, Pattabhi R. K. Rao, Sobha Lalitha Devi, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor
2020 — conf
BiOnt: Deep Learning Using Multiple Biomedical Ontologies for Relation Extraction.
ECIR (2)
Diana F. Sousa, Francisco M. Couto
2020 J jnl
BiOnt: Deep Learning using Multiple Biomedical Ontologies for Relation Extraction.
CoRR
Diana F. Sousa, Francisco M. Couto
2020 — conf
Biomedical Question Answering using Extreme Multi-Label Classification and Ontologies in the Multilingual Panorama.
SIIRH@ECIR
André Neves, André Lamúrias, Francisco M. Couto
2020 — conf
COVID-19: A Semantic-Based Pipeline for Recommending Biomedical Entities.
NLP4COVID@EMNLP
Márcia Barros, Andre Lamurias, Diana F. Sousa, Pedro Ruas, Francisco M. Couto
2020 J jnl
DNA-SeAl: Sensitivity Levels to Optimize the Performance of Privacy-Preserving DNA Alignment.
IEEE J. Biomed. Health Informatics
Maria Fernandes, Jérémie Decouchant, Marcus Völp, Francisco M. Couto, Paulo Jorge Esteves Veríssimo
2020 A conf
DRecPy: A Python Framework for Developing Deep Learning-Based Recommenders.
RecSys
Fábio Colaço, Márcia Barros, Francisco M. Couto
2020 J jnl
ECIR 2020 Workshops: Assessing the Impact of Going Online.
CoRR
Sérgio Nunes, Suzanne Little, Sumit Bhatia, Ludovico Boratto, Guillaume Cabanac, Ricardo Campos, Francisco M. Couto, Stefano Faralli, Ingo Frommholz, Adam Jatowt, Alípio Jorge, Mirko Marras, Philipp Mayr, Giovanni Stilo
2020 J jnl
ECIR 2020 workshops: assessing the impact of going online.
SIGIR Forum
Sérgio Nunes, Suzanne Little, Sumit Bhatia, Ludovico Boratto, Guillaume Cabanac, Ricardo Campos, Francisco M. Couto, Stefano Faralli, Ingo Frommholz, Adam Jatowt, Alípio Jorge, Mirko Marras, Philipp Mayr, Giovanni Stilo
2020 — conf
Extreme Multi-Label Classification applied to the Biomedical and Multilingual Panorama.
CLEF (Working Notes)
André Neves, André Lamúrias, Francisco M. Couto
2020 J jnl
Generating Biomedical Question Answering Corpora From Q&A Forums.
IEEE Access
Andre Lamurias, Diana F. Sousa, Francisco M. Couto
2020 J jnl
Generating Scientific Question Answering Corpora from Q&A forums.
CoRR
Andre Lamurias, Diana F. Sousa, Francisco M. Couto
2020 — conf
Hybrid Semantic Recommender System for Chemical Compounds.
ECIR (2)
Márcia Barros, André Moitinho, Francisco M. Couto
2020 J jnl
Hybrid Semantic Recommender System for Chemical Compounds.
CoRR
Márcia Barros, André Moitinho, Francisco M. Couto
2020 — conf
LasigeBioTM Team at CLEF2020 ChEMU Evaluation Lab: Named Entity Recognition and Event extraction from chemical reactions described in patents using BioBERT NER and RE.
CLEF (Working Notes)
Pedro Ruas, Andre Lamurias, Francisco M. Couto
2020 — conf
LasigeBioTM at CANTEMIST: Named Entity Recognition and Normalization of Tumour Morphology Entities and Clinical Coding of Spanish Health-related Documents.
IberLEF@SEPLN
Pedro Ruas, André Neves, Vitor D. T. Andrade, Francisco M. Couto
2020 J jnl
Linking chemical and disease entities to ontologies by integrating PageRank with extracted relations from literature.
J. Cheminformatics
Pedro Ruas, Andre Lamurias, Francisco M. Couto
2020 — conf
OAEI 2020 results for AML and AMLC.
OM@ISWC
Beatriz Lima, Daniel Faria, Francisco M. Couto, Isabel F. Cruz, Catia Pesquita
2020 — ed.
Proceedings of the Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages co-located with 42nd European Conference on Information Retrieval, SIIRH@ECIR 2020, Lisbon, Portugal, April 14, 2020.
SIIRH@ECIR
Francisco M. Couto, Martin Krallinger
2020 — conf
Proposal of the First International Workshop on Semantic Indexing and Information Retrieval for Health from Heterogeneous Content Types and Languages (SIIRH).
ECIR (2)
Francisco M. Couto, Martin Krallinger
2020 — conf
Report of the First International Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages.
SIIRH@ECIR
Francisco M. Couto, Martin Krallinger
2020 — conf
Towards a Multilingual Corpus for Named Entity Linking Evaluation in the Clinical Domain.
SIIRH@ECIR
Pedro Ruas, André Lamúrias, Francisco M. Couto
2019 — conf
A Silver Standard Corpus of Human Phenotype-Gene Relations.
NAACL-HLT (1)
Diana F. Sousa, Andre Lamurias, Francisco M. Couto
2019 J jnl
A Silver Standard Corpus of Human Phenotype-Gene Relations.
CoRR
Diana F. Sousa, Andre Lamurias, Francisco M. Couto
2019 — conf
AML and AMLC Results for OAEI 2019.
OM@ISWC
Daniel Faria, Catia Pesquita, Teemu Tervo, Francisco M. Couto, Isabel F. Cruz
2019 J jnl
BO-LSTM: classifying relations via long short-term memory networks along biomedical ontologies.
BMC Bioinform.
Andre Lamurias, Diana F. Sousa, Luka A. Clarke, Francisco M. Couto
2019 — conf
LasigeBioTM at MEDIQA 2019: Biomedical Question Answering using Bidirectional Transformers and Named Entity Recognition.
BioNLP@ACL
Andre Lamurias, Francisco M. Couto
2019 J jnl
Multi-domain semantic similarity in biomedical research.
BMC Bioinform.
João D. Ferreira, Francisco M. Couto
2019 J jnl
PPR-SSM: personalized PageRank and semantic similarity measures for entity linking.
BMC Bioinform.
Andre Lamurias, Pedro Ruas, Francisco M. Couto
2019 — ch.
Semantic Similarity Definition.
Encyclopedia of Bioinformatics and Computational Biology (1)
Francisco M. Couto, Andre Lamurias
2019 — ch.
Text Mining for Bioinformatics Using Biomedical Literature.
Encyclopedia of Bioinformatics and Computational Biology (1)
Andre Lamurias, Francisco M. Couto
2019 J jnl
Using Neural Networks for Relation Extraction from Biomedical Literature.
CoRR
Diana F. Sousa, Andre Lamurias, Francisco M. Couto
2019 J jnl
Using Research Literature to Generate Datasets of Implicit Feedback for Recommending Scientific Items.
IEEE Access
Márcia Barros, André Moitinho, Francisco M. Couto
2018 J jnl
Accurate filtering of privacy-sensitive information in raw genomic data.
J. Biomed. Informatics
Jérémie Decouchant, Maria Fernandes, Marcus Völp, Francisco M. Couto, Paulo Jorge Esteves Veríssimo
2018 J jnl
MER: a shell script and annotation server for minimal named entity recognition and linking.
J. Cheminformatics
Francisco M. Couto, Andre Lamurias
2018 — conf
Results of AML participation in OAEI 2018.
OM@ISWC
Daniel Faria, Catia Pesquita, Booma Sowkarthiga Balasubramani, Teemu Tervo, David Carriço, Rodrigo Garrilha, Francisco M. Couto, Isabel F. Cruz
2018 J jnl
Tackling the challenges of matching biomedical ontologies.
J. Biomed. Semant.
Daniel Faria, Catia Pesquita, Isabela Mott, Catarina Martins, Francisco M. Couto, Isabel F. Cruz
2017 Misc conf
Anthropometric Data Analytics: A Portuguese Case Study.
PACBB
António Barata, Lucília Carvalho, Francisco M. Couto
2017 J jnl
Assessing Public Metabolomics Metadata, Towards Improving Quality.
J. Integr. Bioinform.
João D. Ferreira, Bruno Inácio, Reza M. Salek, Francisco M. Couto
2017 Misc conf
Cloud-Assisted Read Alignment and Privacy.
PACBB
Maria Fernandes, Jérémie Decouchant, Francisco M. Couto, Paulo Jorge Esteves Veríssimo
2017 Misc conf
How Can Photo Sharing Inspire Sharing Genomes?
PACBB
Vinicius Vielmo Cogo, Alysson Bessani, Francisco M. Couto, Margarida Gama-Carvalho, Maria Fernandes, Paulo Jorge Esteves Veríssimo
2017 J jnl
Impact of translation on named-entity recognition in radiology texts.
Database J. Biol. Databases Curation
Luís Campos, Vasco Pedro, Francisco M. Couto
2017 J jnl
MRA - Proof of Concept of a Multilingual Report Annotator Web Application.
CoRR
Luís Campos, Francisco M. Couto
2017 Misc conf
Metadata Analyser: Measuring Metadata Quality.
PACBB
Bruno Inácio, João D. Ferreira, Francisco M. Couto
2017 — conf
MoRS at SemEval-2017 Task 3: Easy to use SVM in Ranking Tasks.
SemEval@ACL
Miguel J. Rodrigues, Francisco M. Couto
2017 — conf
Results of AML in OAEI 2017.
OM@ISWC
Daniel Faria, Booma S. Balasubramani, Vivek R. Shivaprabhu, Isabela Mott, Catia Pesquita, Francisco M. Couto, Isabel F. Cruz
2017 — conf
ULISBOA at SemEval-2017 Task 12: Extraction and classification of temporal expressions and events.
SemEval@ACL
Andre Lamurias, Diana F. Sousa, Sofia Pereira, Luka A. Clarke, Francisco M. Couto
2016 J jnl
A Flexible Recommendation System for Cable TV.
CoRR
Diogo Gonçalves, Miguel Costa, Francisco M. Couto
2016 J jnl
A Large-Scale Characterization of User Behaviour in Cable TV.
CoRR
Diogo Gonçalves, Miguel Costa, Francisco M. Couto
2016 — conf
Extraction of Regulatory Events using Kernel-based Classifiers and Distant Supervision.
BioNLP (Shared Task)
Andre Lamurias, Miguel J. Rodrigues, Luka A. Clarke, Francisco M. Couto
2016 J jnl
Functional coherence metrics in protein families.
J. Biomed. Semant.
Hugo P. Bastos, Lisete Sousa, Luka A. Clarke, Francisco M. Couto
2016 J jnl
Knowledge Ratings in MetaboLights.
CoRR
Camila Ramos, Marco Louro, Miguel Santos, Francisco M. Couto
2016 — conf
OAEI 2016 results of AML.
OM@ISWC
Daniel Faria, Catia Pesquita, Booma S. Balasubramani, Catarina Martins, João Cardoso, Hugo Curado, Francisco M. Couto, Isabel F. Cruz
2016 — conf
ULISBOA at SemEval-2016 Task 12: Extraction of temporal expressions, clinical events and relations using IBEnt.
SemEval@NAACL-HLT
Márcia Barros, Andre Lamurias, Gonçalo Figueiró, Marta Antunes, Joana Teixeira, Alexandre Pinheiro, Francisco M. Couto
2016 J jnl
WS4A: a Biomedical Question and Answering System based on public Web Services and Ontologies.
CoRR
Miguel J. Rodrigues, Miguel Falé, Andre Lamurias, Francisco M. Couto
2015 — conf
A High-Throughput Method to Detect Privacy-Sensitive Human Genomic Data.
WPES@CCS
Vinicius Vielmo Cogo, Alysson Bessani, Francisco M. Couto, Paulo Veríssimo
2015 — conf
AML results for OAEI 2015.
OM
Daniel Faria, Catarina Martins, Amruta Nanavaty, Daniela Oliveira, Booma Sowkarthiga, Aynaz Taheri, Catia Pesquita, Francisco M. Couto, Isabel F. Cruz
2015 — conf
Annotating biomedical ontology terms in electronic health records using crowd-sourcing.
ICBO
Andre Lamurias, Vasco Pedro, Luka A. Clarke, Francisco M. Couto
2015 J jnl
Automatic concept recognition using the Human Phenotype Ontology reference and test suite corpora.
Database J. Biol. Databases Curation
Tudor Groza, Sebastian Köhler, Sandra C. Doelken, Nigel Collier, Anika Oellrich, Damian Smedley, Francisco M. Couto, Gareth Baynam, Andreas Zankl, Peter N. Robinson
2015 — conf
IICE: Web Tool for Automatic Identification of Chemical Entities and Interactions.
ECML/PKDD (3)
Andre Lamurias, Luka A. Clarke, Francisco M. Couto
2015 J jnl
Improving chemical entity recognition through h-index based semantic similarity.
J. Cheminformatics
Andre Lamurias, João D. Ferreira, Francisco M. Couto
2015 — ed.
Proceedings of the International Conference on Biomedical Ontology, ICBO 2015, Lisbon, Portugal, July 27-30, 2015.
ICBO
Francisco M. Couto, Janna Hastings
2015 Misc conf
Social Impact - Identifying Quotes of Literary Works in Social Networks.
EPIA
Carlos Barata, Mónica Abreu, Pedro Torres, Jorge Teixeira, Tiago João Guerreiro, Francisco M. Couto
2015 J jnl
The CHEMDNER corpus of chemicals and drugs and its annotation principles.
J. Cheminformatics
Martin Krallinger, Obdulia Rabal, Florian Leitner, Miguel Vazquez, David Salgado, Zhiyong Lu, Robert Leaman, Yanan Lu, Donghong Ji, Daniel M. Lowe, Roger A. Sayle, Riza Theresa Batista-Navarro, Rafal Rak, Torsten Huber, Tim Rocktäschel, Sérgio Matos, David Campos, Buzhou Tang, Hua Xu, Tsendsuren Munkhdalai, Keun Ho Ryu, S. V. Ramanan, P. Senthil Nathan, Slavko Zitnik, Marko Bajec, Lutz Weber, Matthias Irmer, Saber A. Akhondi, Jan A. Kors, Shuo Xu, Xin An, Utpal Kumar Sikdar, Asif Ekbal, Masaharu Yoshioka, Thaer M. Dieb, Miji Choi, Karin Verspoor, Madian Khabsa, C. Lee Giles, Hongfang Liu, Ravikumar Komandur Elayavilli, Andre Lamurias, Francisco M. Couto, Hong-Jie Dai, Richard Tzong-Han Tsai, Caglar Ata, Tolga Can, Anabel Usie, Rui Alves, Isabel Segura-Bedmar, Paloma Martínez, Julen Oyarzabal, Alfonso Valencia
2015 J jnl
The semantic web in translational medicine: current applications and future directions.
Briefings Bioinform.
Catia M. Machado, Dietrich Rebholz-Schuhmann, Ana T. Freitas, Francisco M. Couto
2015 — conf
ULisboa: Recognition and Normalization of Medical Concepts.
SemEval@NAACL-HLT
André Leal, Bruno Martins, Francisco M. Couto
2014 — conf
AgreementMakerLight 2.0: Towards Efficient Large-Scale Ontology Matching.
ISWC (Posters & Demos)
Daniel Faria, Catia Pesquita, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto
2014 — conf
AgreementMakerLight results for OAEI 2014.
OM
Daniel Faria, Catarina Martins, Amruta Nanavaty, Aynaz Taheri, Catia Pesquita, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto
2014 — conf
Building reference alignments for compound matching of multiple ontologies using OBO cross-products.
OM
Catia Pesquita, Michelle Cheatham, Daniel Faria, Joana Barros, Emanuel Santos, Francisco M. Couto
2014 Misc conf
Chemical Named Entity Recognition: Improving Recall Using a Comprehensive List of Lexical Features.
PACBB
Andre Lamurias, João D. Ferreira, Francisco M. Couto
2014 — conf
Friendsourcing the unmet needs of people with dementia.
W4A
João Martins, José Carilho, Oliver Schnell, Carlos Duarte, Francisco M. Couto, Luís Carriço, Tiago João Guerreiro
2014 J jnl
Identifying interactions between chemical entities in biomedical text.
J. Integr. Bioinform.
Andre Lamurias, João D. Ferreira, Francisco M. Couto
2014 A* conf
Learning temporal-dependent ranking models.
SIGIR
Miguel Costa, Francisco M. Couto, Mário J. Silva
2014 — conf
Rating, Recognizing and Rewarding Metadata Integration and Sharing on the Semantic Web.
URSW
Francisco M. Couto
2014 J jnl
The epidemiology ontology: an ontology for the semantic annotation of epidemiological resources.
J. Biomed. Semant.
Catia Pesquita, João D. Ferreira, Francisco M. Couto, Mário J. Silva
2014 — conf
Towards Annotating Potential Incoherences in BioPortal Mappings.
ISWC (2)
Daniel Faria, Ernesto Jiménez-Ruiz, Catia Pesquita, Emanuel Santos, Francisco M. Couto
2014 — conf
Towards Visualizing the Alignment of Large Biomedical Ontologies.
DILS
Catia Pesquita, Daniel Faria, Emanuel Santos, Jean-Marc Neefs, Francisco M. Couto
2014 — conf
ULisboa: Identification and Classification of Medical Concepts.
SemEval@COLING
André Leal, Diogo Gonçalves, Bruno Martins, Francisco M. Couto
2013 — conf
A survey of web archive search architectures.
WWW (Companion Volume)
Miguel Costa, Daniel Gomes, Francisco M. Couto, Mário J. Silva
2013 — conf
AgreementMakerLight results for OAEI 2013.
OM
Daniel Faria, Catia Pesquita, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto
2013 J jnl
Benchmarking some Portuguese S&T system research units
CoRR
Francisco M. Couto, Daniel Faria, Bruno Tavares, Pedro Gonçalves, Paulo Veríssimo
2013 J jnl
CIDS country rankings: comparing documents and citations of USA, UK and China top researchers.
CoRR
Francisco M. Couto
2013 — conf
Digital preservation of epidemic resources: coupling metadata and ontologies.
iPRES
João D. Ferreira, Catia Pesquita, Francisco M. Couto, Mário J. Silva
2013 J jnl
Enrichment analysis applied to disease prognosis.
J. Biomed. Semant.
Catia M. Machado, Ana T. Freitas, Francisco M. Couto
2013 J jnl
Exploiting disjointness axioms to improve semantic similarity measures.
Bioinform.
João D. Ferreira, Janna Hastings, Francisco M. Couto
2013 — conf
LASIGE: using Conditional Random Fields and ChEBI ontology.
SemEval@NAACL-HLT
Tiago Grego, Francisco R. Pinto, Francisco M. Couto
2013 J jnl
Ontology alignment repair through modularization and confidence-based heuristics.
CoRR
Emanuel Santos, Daniel Faria, Catia Pesquita, Francisco M. Couto
2013 — conf
REACTION: A naive machine learning approach for sentiment classification.
SemEval@NAACL-HLT
Silvio Moreira, João Filgueiras, Bruno Martins, Francisco M. Couto, Mário J. Silva
2013 — conf
The AgreementMakerLight Ontology Matching System.
OTM Conferences
Daniel Faria, Catia Pesquita, Emanuel Santos, Matteo Palmonari, Isabel F. Cruz, Francisco M. Couto
2013 J jnl
The Next Generation of Similarity Measures that Fully Explore the Semantics in Biomedical Ontologies.
J. Bioinform. Comput. Biol.
Francisco M. Couto, Helena Sofia Pinto
2013 — conf
To repair or not to repair: reconciling correctness and coherence in ontology reference alignments.
OM
Catia Pesquita, Daniel Faria, Emanuel Santos, Francisco M. Couto
2013 J jnl
Tracking politics with POWER.
Program
Silvio Moreira, David S. Batista, Paula Carvalho, Francisco M. Couto, Mário J. Silva
2013 — conf
What's in a 'nym'? Synonyms in Biomedical Ontology Matching.
ISWC (1)
Catia Pesquita, Daniel Faria, Cosmin Stroe, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto
2012 — conf
Bringing epidemiology into the Semantic Web.
ICBO
João D. Ferreira, Catia Pesquita, Francisco M. Couto, Mário J. Silva
2012 — conf
Identifying Chemical Entities based on ChEBI.
ICBO
Tiago Grego, Francisco R. Pinto, Francisco M. Couto
2012 J jnl
Predicting the Extension of Biomedical Ontologies.
PLoS Comput. Biol.
Catia Pesquita, Francisco M. Couto
2012 J jnl
Testing the AgreementMaker System in the Anatomy Task of OAEI 2012
CoRR
Daniel Faria, Catia Pesquita, Emanuel Santos, Francisco M. Couto, Cosmin Stroe, Isabel F. Cruz
2012 — conf
The Epidemic Marketplace Platform: towards semantic characterization of epidemiological resources using biomedical ontologies.
ICBO
Francisco M. Couto, João D. Ferreira, João Zamite, Carlos Santos, Tiago Posse, Paulo M. L. A. Graça, Dulce Domingos, Mário J. Silva
2012 — conf
Toponym Disambiguation Using Ontology-Based Semantic Similarity.
PROPOR
David S. Batista, João D. Ferreira, Francisco M. Couto, Mário J. Silva
2012 — conf
Toward a Translational Medicine Approach for Hypertrophic Cardiomyopathy.
ITBAM
Catia M. Machado, Francisco M. Couto, Alexandra R. Fernandes, Susana Santos, Ana T. Freitas
2011 — conf
Biomedical Ontology Matching Using the AgreementMaker System.
ICBO
Isabel F. Cruz, Cosmin Stroe, Catia Pesquita, Francisco M. Couto, Valerie Cross
2011 J jnl
Disjunctive shared information between ontology concepts: application to Gene Ontology.
J. Biomed. Semant.
Francisco M. Couto, Mário J. Silva
2011 — conf
Generic Semantic Relatedness Measure for Biomedical Ontologies.
ICBO
João D. Ferreira, Francisco M. Couto
2011 J jnl
MEDCollector: Multisource Epidemic Data Collector.
Trans. Large Scale Data Knowl. Centered Syst.
João Zamite, Fabrício A. B. da Silva, Francisco M. Couto, Mário J. Silva
2011 — conf
REACTION at the Entity Linking task in KBP 2011.
TAC
David S. Batista, Silvio Moreira, Mário J. Silva, Paula Carvalho, Francisco M. Couto
2011 — conf
The Biomedical Ontology Applications (BOA) Framework.
ICBO
Bruno Tavares, Hugo P. Bastos, Daniel Faria, João D. Ferreira, Tiago Grego, Catia Pesquita, Francisco M. Couto
2011 — conf
Using AgreementMaker to align ontologies for OAEI 2011.
OM
Isabel F. Cruz, Cosmin Stroe, Federico Caimi, Alessio Fabiani, Catia Pesquita, Francisco M. Couto, Matteo Palmonari
2011 — conf
Where GO is Going and What it Means for Ontology Extension.
ICBO
Catia Pesquita, Francisco M. Couto
2010 — conf
BLOOMS on AgreementMaker: results for OAEI 2010.
OM
Catia Pesquita, Cosmin Stroe, Isabel F. Cruz, Francisco M. Couto
2010 — conf
Epidemic Marketplace: An Information Management System for Epidemiological Data.
ITBAM
Luis F. Lopes, Fabrício A. B. da Silva, Francisco M. Couto, João Zamite, Hugo Alexandre Ferreira, Carla Sousa, Mário J. Silva
2010 J jnl
Epidemic Marketplace: An e-Science Platform for Epidemic Modelling and Analysis.
ERCIM News
Fabrício A. B. da Silva, Mário J. Silva, Francisco M. Couto
2010 — conf
Geographic signatures for semantic retrieval.
GIR
David S. Batista, Mário J. Silva, Francisco M. Couto, Bibek Behera
2010 — conf
MEDCollector: Multisource Epidemic Data Collector.
ITBAM
João Zamite, Fabrício A. B. da Silva, Francisco M. Couto, Mário J. Silva
2010 J jnl
Semantic Similarity for Automatic Classification of Chemical Compounds.
PLoS Comput. Biol.
João D. Ferreira, Francisco M. Couto
2010 — conf
Semantic characterization of hypertrophic cardiomyopathy disease.
BIBM Workshops
Catia M. Machado, Francisco M. Couto, Alexandra R. Fernandes, Susana Santos, Nuno Cardim, Ana T. Freitas
2010 J jnl
Unraveling Hypertrophic Cardiomyopathy Variability.
ERCIM News
Catia M. Machado, Francisco M. Couto, Alexandra R. Fernandes, Susana Santos, Nuno Cardim, Ana T. Freitas
2009 — conf
GREAT: Gene Regulation EvAluation Tool.
IWANN (2)
Catia M. Machado, Hugo P. Bastos, Francisco M. Couto
2009 — conf
Identification of Chemical Entities in Patent Documents.
IWANN (2)
Tiago Grego, Piotr Pezik, Francisco M. Couto, Dietrich Rebholz-Schuhmann
2009 — conf
Identifying Gene Ontology Areas for Automated Enrichment.
IWANN (2)
Catia Pesquita, Tiago Grego, Francisco M. Couto
2009 Misc conf
Measuring coherence between electronic and manual annotations in biological databases.
SAC
Catia Pesquita, Daniel Faria, Francisco M. Couto
2009 J jnl
Semantic Similarity in Biomedical Ontologies.
PLoS Comput. Biol.
Catia Pesquita, Daniel Faria, André O. Falcão, Phillip W. Lord, Francisco M. Couto
2009 — ch.
Verification of Uncurated Protein Annotations.
Information Retrieval in Biomedicine
Francisco M. Couto, Mário J. Silva, Vivian Lee, Emily Dimmer, Evelyn Camon, Rolf Apweiler
2008 — conf
Identifying bioentity recognition errors of rule-based text-mining systems.
ICDIM
Francisco M. Couto, Tiago Grego, Hugo P. Bastos, Catia Pesquita, Rafael P. Torres, Pablo Sanchez, Leandro Pascual, Christian Blaschke
2008 J jnl
Metrics for GO based protein semantic similarity: a systematic evaluation.
BMC Bioinform.
Catia Pesquita, Daniel Faria, Hugo P. Bastos, António E. N. Ferreira, André O. Falcão, Francisco M. Couto
2007 J jnl
Measuring semantic similarity between Gene Ontology terms.
Data Knowl. Eng.
Francisco M. Couto, Mário J. Silva, Pedro Coutinho
2006 — —
ReBIL: Relating Biological Information through Literature
Francisco M. Couto
2006 A conf
Validating associations in biological databases.
CIKM
Francisco M. Couto, Mário J. Silva, Pedro Coutinho
2005 J jnl
Finding genomic ontology terms in text using evidence content.
BMC Bioinform.
Francisco M. Couto, Mário J. Silva, Pedro Coutinho
2005 A conf
Semantic similarity over the gene ontology: family correlation and selecting disjunctive ancestors.
CIKM
Francisco M. Couto, Mário J. Silva, Pedro Coutinho
2004 Misc conf
Classifying biological articles using web resources.
SAC
Francisco M. Couto, Bruno Martins, Mário J. Silva
2003 — conf
ProFAL: PROtein Functional Annotation through Literature.
JISBD
Francisco M. Couto, Mário J. Silva, Pedro Coutinho