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2020 – today
- 2024
[j41]Matilde Pato
, Márcia Barros, Francisco M. Couto:
Survey on Recommender Systems for Biomedical Items in Life and Health Sciences. ACM Comput. Surv. 56(6): 149:1-149:32 (2024)- [c82]Christopher Anaya, Maria Fernandes, Francisco M. Couto:
LLM Fine-Tuning With Biomedical Open-Source Data. CLEF (Working Notes) 2024: 68-77 - [i20]Pedro Ruas, Fernando Gallego Donoso, Francisco J. Veredas, Francisco M. Couto:
Hybrid X-Linker: Automated Data Generation and Extreme Multi-label Ranking for Biomedical Entity Linking. CoRR abs/2407.06292 (2024) - 2023
- [j40]Maria Fernandes, Jérémie Decouchant, Francisco M. Couto:
Chapter Two - Security, privacy, and trust management in DNA computing. Adv. Comput. 129: 39-81 (2023) - [j39]Diana F. Sousa, Francisco M. Couto:
K-RET: knowledgeable biomedical relation extraction system. Bioinform. 39(4) (2023) - [j38]Muhammad Asif, Hugo F. M. C. Martiniano, Andre Lamurias, Samina Kausar, Francisco M. Couto:
DGH-GO: dissecting the genetic heterogeneity of complex diseases using gene ontology. BMC Bioinform. 24(1): 171 (2023) - [c81]Sofia I R. Conceição, Diana F. Sousa, Pedro Silvestre, Francisco M. Couto:
lasigeBioTM at SemEval-2023 Task 7: Improving Natural Language Inference Baseline Systems with Domain Ontologies. SemEval@ACL 2023: 10-15 - [i19]Pedro Ruas, Diana F. Sousa, André Neves, Carlos Cruz, Francisco M. Couto:
LASIGE and UNICAGE solution to the NASA LitCoin NLP Competition. CoRR abs/2308.05609 (2023) - 2022
- [j37]Pedro Ruas, Francisco M. Couto:
NILINKER: Attention-based approach to NIL Entity Linking. J. Biomed. Informatics 132: 104137 (2022) - [j36]Diana F. Sousa, Francisco M. Couto:
Biomedical Relation Extraction With Knowledge Graph-Based Recommendations. IEEE J. Biomed. Health Informatics 26(8): 4207-4217 (2022) - 2021
- [j35]Andre Lamurias, Sofia Jesus, Vanessa Neveu, Reza M. Salek, Francisco M. Couto:
Information Retrieval Using Machine Learning for Biomarker Curation in the Exposome-Explorer. Frontiers Res. Metrics Anal. 6: 689264 (2021) - [j34]Márcia Barros, André Moitinho, Francisco M. Couto:
Hybrid semantic recommender system for chemical compounds in large-scale datasets. J. Cheminformatics 13(1): 15 (2021) - [c80]Margarida M. Campos, Francisco M. Couto:
Post-processing BioBERT And Using Voting Methods for Biomedical Question Answering. CLEF (Working Notes) 2021: 258-273 - [c79]Pedro Ruas, Vitor D. T. Andrade, Francisco M. Couto:
LASIGE-BioTM at MESINESP2: entity linking with semantic similarity and extreme multi-label classification on Spanish biomedical documents. CLEF (Working Notes) 2021: 324-334 - [c78]Márcia Barros, Francisco M. Couto, Matilde Pato, Pedro Ruas:
Creating Recommender Systems Datasets in Scientific Fields. KDD 2021: 4029-4030 - [c77]Daniel Faria, Beatriz Lima, Marta Contreiras Silva, Francisco M. Couto, Catia Pesquita:
AML and AMLC results for OAEI 2021. OM@ISWC 2021: 131-136 - [c76]Pedro Ruas, Vitor D. T. Andrade, Francisco M. Couto:
Lasige-BioTM at ProfNER: BiLSTM-CRF and contextual Spanish embeddings for Named Entity Recognition and Tweet Binary Classification. SMM4H@NAACL-HLT 2021: 108-111 - [p2]Diana F. Sousa, Andre Lamurias, Francisco M. Couto:
Using Neural Networks for Relation Extraction from Biomedical Literature. Artificial Neural Networks, 3rd Edition 2021: 289-305 - 2020
- [j33]Andre Lamurias, Diana F. Sousa, Francisco M. Couto:
Generating Biomedical Question Answering Corpora From Q&A Forums. IEEE Access 8: 161042-161051 (2020) - [j32]Diana F. Sousa, Andre Lamurias, Francisco M. Couto:
A hybrid approach toward biomedical relation extraction training corpora: combining distant supervision with crowdsourcing. Database J. Biol. Databases Curation 2020 (2020) - [j31]Pedro Ruas, Andre Lamurias, Francisco M. Couto:
Linking chemical and disease entities to ontologies by integrating PageRank with extracted relations from literature. J. Cheminformatics 12(1): 57 (2020) - [j30]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:
ECIR 2020 workshops: assessing the impact of going online. SIGIR Forum 54(1): 7:1-7:11 (2020) - [j29]Maria Fernandes, Jérémie Decouchant, Marcus Völp, Francisco M. Couto, Paulo Jorge Esteves Veríssimo:
DNA-SeAl: Sensitivity Levels to Optimize the Performance of Privacy-Preserving DNA Alignment. IEEE J. Biomed. Health Informatics 24(3): 907-915 (2020) - [c75]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 Rk Rao, Sobha Lalitha Devi, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor:
An Extended Overview of the CLEF 2020 ChEMU Lab: Information Extraction of Chemical Reactions from Patents. CLEF (Working Notes) 2020 - [c74]André Neves, André Lamúrias, Francisco M. Couto:
Extreme Multi-Label Classification applied to the Biomedical and Multilingual Panorama. CLEF (Working Notes) 2020 - [c73]Pedro Ruas, Andre Lamurias, Francisco M. Couto:
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) 2020 - [c72]Márcia Barros, André Moitinho, Francisco M. Couto:
Hybrid Semantic Recommender System for Chemical Compounds. ECIR (2) 2020: 94-101 - [c71]André Neves, André Lamúrias, Francisco M. Couto:
Biomedical Question Answering using Extreme Multi-Label Classification and Ontologies in the Multilingual Panorama. SIIRH@ECIR 2020 - [c70]Diana F. Sousa, Francisco M. Couto:
BiOnt: Deep Learning Using Multiple Biomedical Ontologies for Relation Extraction. ECIR (2) 2020: 367-374 - [c69]Francisco M. Couto, Martin Krallinger:
Proposal of the First International Workshop on Semantic Indexing and Information Retrieval for Health from Heterogeneous Content Types and Languages (SIIRH). ECIR (2) 2020: 654-659 - [c68]Francisco M. Couto, Martin Krallinger:
Report of the First International Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages. SIIRH@ECIR 2020 - [c67]Pedro Ruas, André Lamúrias, Francisco M. Couto:
Towards a Multilingual Corpus for Named Entity Linking Evaluation in the Clinical Domain. SIIRH@ECIR 2020 - [c66]Márcia Barros, Andre Lamurias, Diana F. Sousa, Pedro Ruas, Francisco M. Couto:
COVID-19: A Semantic-Based Pipeline for Recommending Biomedical Entities. NLP4COVID@EMNLP 2020 - [c65]Fábio Colaço, Márcia Barros, Francisco M. Couto:
DRecPy: A Python Framework for Developing Deep Learning-Based Recommenders. RecSys 2020: 675-680 - [c64]Beatriz Lima, Daniel Faria, Francisco M. Couto, Isabel F. Cruz, Catia Pesquita:
OAEI 2020 results for AML and AMLC. OM@ISWC 2020: 154-160 - [c63]Pedro Ruas, André Neves, Vitor D. T. Andrade, Francisco M. Couto, Mario Ezra Aragón:
LasigeBioTM at CANTEMIST: Named Entity Recognition and Normalization of Tumour Morphology Entities and Clinical Coding of Spanish Health-related Documents. IberLEF@SEPLN 2020: 422-437 - [e2]Francisco M. Couto, Martin Krallinger:
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. CEUR Workshop Proceedings 2619, CEUR-WS.org 2020 [contents] - [i18]Diana F. Sousa, Francisco M. Couto:
BiOnt: Deep Learning using Multiple Biomedical Ontologies for Relation Extraction. CoRR abs/2001.07139 (2020) - [i17]Márcia Barros, André Moitinho, Francisco M. Couto:
Hybrid Semantic Recommender System for Chemical Compounds. CoRR abs/2001.07440 (2020) - [i16]Andre Lamurias, Diana F. Sousa, Francisco M. Couto:
Generating Scientific Question Answering Corpora from Q&A forums. CoRR abs/2002.02375 (2020) - [i15]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:
ECIR 2020 Workshops: Assessing the Impact of Going Online. CoRR abs/2005.06748 (2020)
2010 – 2019
- 2019
- [j28]Márcia Barros, André Moitinho, Francisco M. Couto:
Using Research Literature to Generate Datasets of Implicit Feedback for Recommending Scientific Items. IEEE Access 7: 176668-176680 (2019) - [j27]Andre Lamurias, Diana F. Sousa, Luka A. Clarke, Francisco M. Couto:
BO-LSTM: classifying relations via long short-term memory networks along biomedical ontologies. BMC Bioinform. 20(1): 10 (2019) - [j26]Andre Lamurias, Pedro Ruas, Francisco M. Couto:
PPR-SSM: personalized PageRank and semantic similarity measures for entity linking. BMC Bioinform. 20(1): 534:1-534:12 (2019) - [j25]João D. Ferreira, Francisco M. Couto:
Multi-domain semantic similarity in biomedical research. BMC Bioinform. 20-S(10): 23-31 (2019) - [c62]Andre Lamurias, Francisco M. Couto:
LasigeBioTM at MEDIQA 2019: Biomedical Question Answering using Bidirectional Transformers and Named Entity Recognition. BioNLP@ACL 2019: 523-527 - [c61]Diana F. Sousa, Andre Lamurias, Francisco M. Couto:
A Silver Standard Corpus of Human Phenotype-Gene Relations. NAACL-HLT (1) 2019: 1487-1492 - [c60]Daniel Faria, Catia Pesquita, Teemu Tervo, Francisco M. Couto, Isabel F. Cruz:
AML and AMLC Results for OAEI 2019. OM@ISWC 2019: 101-106 - [r2]Andre Lamurias, Francisco M. Couto:
Text Mining for Bioinformatics Using Biomedical Literature. Encyclopedia of Bioinformatics and Computational Biology (1) 2019: 602-611 - [r1]Francisco M. Couto, Andre Lamurias:
Semantic Similarity Definition. Encyclopedia of Bioinformatics and Computational Biology (1) 2019: 870-876 - [i14]Diana F. Sousa, Andre Lamurias, Francisco M. Couto:
A Silver Standard Corpus of Human Phenotype-Gene Relations. CoRR abs/1903.10728 (2019) - [i13]Diana F. Sousa, Andre Lamurias, Francisco M. Couto:
Using Neural Networks for Relation Extraction from Biomedical Literature. CoRR abs/1905.11391 (2019) - 2018
- [j24]Daniel Faria, Catia Pesquita, Isabela Mott, Catarina Martins, Francisco M. Couto, Isabel F. Cruz:
Tackling the challenges of matching biomedical ontologies. J. Biomed. Semant. 9(1): 4:1-4:19 (2018) - [j23]Jérémie Decouchant, Maria Fernandes, Marcus Völp, Francisco M. Couto, Paulo Jorge Esteves Veríssimo:
Accurate filtering of privacy-sensitive information in raw genomic data. J. Biomed. Informatics 82: 1-12 (2018) - [j22]Francisco M. Couto, Andre Lamurias:
MER: a shell script and annotation server for minimal named entity recognition and linking. J. Cheminformatics 10(1): 58:1-58:10 (2018) - [c59]Daniel Faria, Catia Pesquita, Booma Sowkarthiga Balasubramani, Teemu Tervo, David Carriço, Rodrigo Garrilha, Francisco M. Couto, Isabel F. Cruz:
Results of AML participation in OAEI 2018. OM@ISWC 2018: 125-131 - 2017
- [j21]Luís Campos, Vasco Pedro, Francisco M. Couto:
Impact of translation on named-entity recognition in radiology texts. Database J. Biol. Databases Curation 2017: bax064 (2017) - [j20]João D. Ferreira, Bruno Inácio, Reza M. Salek, Francisco M. Couto:
Assessing Public Metabolomics Metadata, Towards Improving Quality. J. Integr. Bioinform. 14(4) (2017) - [c58]Vinicius Vielmo Cogo, Alysson Bessani, Francisco M. Couto, Margarida Gama-Carvalho, Maria Fernandes, Paulo Jorge Esteves Veríssimo:
How Can Photo Sharing Inspire Sharing Genomes? PACBB 2017: 74-82 - [c57]António Barata, Lucília Carvalho, Francisco M. Couto:
Anthropometric Data Analytics: A Portuguese Case Study. PACBB 2017: 92-100 - [c56]Bruno Inácio, João D. Ferreira, Francisco M. Couto:
Metadata Analyser: Measuring Metadata Quality. PACBB 2017: 197-204 - [c55]Maria Fernandes, Jérémie Decouchant, Francisco M. Couto, Paulo Jorge Esteves Veríssimo:
Cloud-Assisted Read Alignment and Privacy. PACBB 2017: 220-227 - [c54]Miguel J. Rodrigues, Francisco M. Couto:
MoRS at SemEval-2017 Task 3: Easy to use SVM in Ranking Tasks. SemEval@ACL 2017: 287-291 - [c53]Andre Lamurias, Diana F. Sousa, Sofia Pereira, Luka A. Clarke, Francisco M. Couto:
ULISBOA at SemEval-2017 Task 12: Extraction and classification of temporal expressions and events. SemEval@ACL 2017: 1019-1023 - [c52]Daniel Faria, Booma S. Balasubramani, Vivek R. Shivaprabhu, Isabela Mott, Catia Pesquita, Francisco M. Couto, Isabel F. Cruz:
Results of AML in OAEI 2017. OM@ISWC 2017: 122-128 - [i12]Luís Campos, Francisco M. Couto:
MRA - Proof of Concept of a Multilingual Report Annotator Web Application. CoRR abs/1704.01748 (2017) - 2016
- [j19]Hugo P. Bastos, Lisete Sousa, Luka A. Clarke, Francisco M. Couto:
Functional coherence metrics in protein families. J. Biomed. Semant. 7: 41 (2016) - [c51]Andre Lamurias, Miguel J. Rodrigues, Luka A. Clarke, Francisco M. Couto:
Extraction of Regulatory Events using Kernel-based Classifiers and Distant Supervision. BioNLP (Shared Task) 2016: 88-92 - [c50]Márcia Barros, Andre Lamurias, Gonçalo Figueiró, Marta Antunes, Joana Teixeira, Alexandre Pinheiro, Francisco M. Couto:
ULISBOA at SemEval-2016 Task 12: Extraction of temporal expressions, clinical events and relations using IBEnt. SemEval@NAACL-HLT 2016: 1263-1267 - [c49]Daniel Faria, Catia Pesquita, Booma S. Balasubramani, Catarina Martins, João Cardoso, Hugo Curado, Francisco M. Couto, Isabel F. Cruz:
OAEI 2016 results of AML. OM@ISWC 2016: 138-145 - [i11]Camila Ramos, Marco Louro, Miguel Santos, Francisco M. Couto:
Knowledge Ratings in MetaboLights. CoRR abs/1604.07997 (2016) - [i10]Diogo Gonçalves, Miguel Costa, Francisco M. Couto:
A Flexible Recommendation System for Cable TV. CoRR abs/1609.02451 (2016) - [i9]Diogo Gonçalves, Miguel Costa, Francisco M. Couto:
A Large-Scale Characterization of User Behaviour in Cable TV. CoRR abs/1609.02453 (2016) - [i8]Miguel J. Rodrigues, Miguel Falé, Andre Lamurias, Francisco M. Couto:
WS4A: a Biomedical Question and Answering System based on public Web Services and Ontologies. CoRR abs/1609.08492 (2016) - 2015
- [j18]Catia M. Machado, Dietrich Rebholz-Schuhmann, Ana T. Freitas, Francisco M. Couto:
The semantic web in translational medicine: current applications and future directions. Briefings Bioinform. 16(1): 89-103 (2015) - [j17]Tudor Groza, Sebastian Köhler, Sandra C. Doelken, Nigel Collier, Anika Oellrich, Damian Smedley, Francisco M. Couto, Gareth Baynam, Andreas Zankl, Peter N. Robinson:
Automatic concept recognition using the Human Phenotype Ontology reference and test suite corpora. Database J. Biol. Databases Curation 2015 (2015) - [j16]Andre Lamurias, João D. Ferreira, Francisco M. Couto:
Improving chemical entity recognition through h-index based semantic similarity. J. Cheminformatics 7(S-1): S13 (2015) - [j15]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:
The CHEMDNER corpus of chemicals and drugs and its annotation principles. J. Cheminformatics 7(S-1): S2 (2015) - [c48]Carlos Barata, Mónica Abreu, Pedro Torres, Jorge Teixeira, Tiago João Guerreiro, Francisco M. Couto:
Social Impact - Identifying Quotes of Literary Works in Social Networks. EPIA 2015: 789-795 - [c47]Andre Lamurias, Vasco Pedro, Luka A. Clarke, Francisco M. Couto:
Annotating biomedical ontology terms in electronic health records using crowd-sourcing. ICBO 2015 - [c46]Andre Lamurias, Luka A. Clarke, Francisco M. Couto:
IICE: Web Tool for Automatic Identification of Chemical Entities and Interactions. ECML/PKDD (3) 2015: 285-288 - [c45]André Leal, Bruno Martins, Francisco M. Couto:
ULisboa: Recognition and Normalization of Medical Concepts. SemEval@NAACL-HLT 2015: 406-411 - [c44]Daniel Faria, Catarina Martins, Amruta Nanavaty, Daniela Oliveira, Booma Sowkarthiga, Aynaz Taheri, Catia Pesquita, Francisco M. Couto, Isabel F. Cruz:
AML results for OAEI 2015. OM 2015: 116-123 - [c43]Vinicius Vielmo Cogo, Alysson Bessani, Francisco M. Couto, Paulo Veríssimo:
A High-Throughput Method to Detect Privacy-Sensitive Human Genomic Data. WPES@CCS 2015: 101-110 - [e1]Francisco M. Couto, Janna Hastings:
Proceedings of the International Conference on Biomedical Ontology, ICBO 2015, Lisbon, Portugal, July 27-30, 2015. CEUR Workshop Proceedings 1515, CEUR-WS.org 2015 [contents] - 2014
- [j14]Catia Pesquita, João D. Ferreira, Francisco M. Couto, Mário J. Silva:
The epidemiology ontology: an ontology for the semantic annotation of epidemiological resources. J. Biomed. Semant. 5: 4 (2014) - [j13]Andre Lamurias, João D. Ferreira, Francisco M. Couto:
Identifying interactions between chemical entities in biomedical text. J. Integr. Bioinform. 11(3) (2014) - [c42]Catia Pesquita, Daniel Faria, Emanuel Santos, Jean-Marc Neefs, Francisco M. Couto:
Towards Visualizing the Alignment of Large Biomedical Ontologies. DILS 2014: 104-111 - [c41]Andre Lamurias, João D. Ferreira, Francisco M. Couto:
Chemical Named Entity Recognition: Improving Recall Using a Comprehensive List of Lexical Features. PACBB 2014: 253-260 - [c40]André Leal, Diogo Gonçalves, Bruno Martins, Francisco M. Couto:
ULisboa: Identification and Classification of Medical Concepts. SemEval@COLING 2014: 711-715 - [c39]Daniel Faria, Ernesto Jiménez-Ruiz, Catia Pesquita, Emanuel Santos, Francisco M. Couto:
Towards Annotating Potential Incoherences in BioPortal Mappings. ISWC (2) 2014: 17-32 - [c38]Francisco M. Couto:
Rating, Recognizing and Rewarding Metadata Integration and Sharing on the Semantic Web. URSW 2014: 67-72 - [c37]Daniel Faria, Catarina Martins, Amruta Nanavaty, Aynaz Taheri, Catia Pesquita, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto:
AgreementMakerLight results for OAEI 2014. OM 2014: 105-112 - [c36]Catia Pesquita, Michelle Cheatham, Daniel Faria, Joana Barros, Emanuel Santos, Francisco M. Couto:
Building reference alignments for compound matching of multiple ontologies using OBO cross-products. OM 2014: 172-173 - [c35]Daniel Faria, Catia Pesquita, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto:
AgreementMakerLight 2.0: Towards Efficient Large-Scale Ontology Matching. ISWC (Posters & Demos) 2014: 457-460 - [c34]Miguel Costa, Francisco M. Couto, Mário J. Silva:
Learning temporal-dependent ranking models. SIGIR 2014: 757-766 - [c33]João Martins, José Carilho, Oliver Schnell, Carlos Duarte, Francisco M. Couto, Luís Carriço, Tiago João Guerreiro:
Friendsourcing the unmet needs of people with dementia. W4A 2014: 35:1-35:4 - 2013
- [j12]João D. Ferreira, Janna Hastings, Francisco M. Couto:
Exploiting disjointness axioms to improve semantic similarity measures. Bioinform. 29(21): 2781-2787 (2013) - [j11]Catia M. Machado, Ana T. Freitas, Francisco M. Couto:
Enrichment analysis applied to disease prognosis. J. Biomed. Semant. 4: 21 (2013) - [j10]Francisco M. Couto, Helena Sofia Pinto:
The Next Generation of Similarity Measures that Fully Explore the Semantics in Biomedical Ontologies. J. Bioinform. Comput. Biol. 11(5) (2013) - [j9]Silvio Moreira, David S. Batista, Paula Carvalho, Francisco M. Couto, Mário J. Silva:
Tracking politics with POWER. Program 47(2): 120-135 (2013) - [c32]João D. Ferreira, Catia Pesquita, Francisco M. Couto, Mário J. Silva:
Digital preservation of epidemic resources: coupling metadata and ontologies. iPRES 2013 - [c31]Daniel Faria, Catia Pesquita, Emanuel Santos, Matteo Palmonari, Isabel F. Cruz, Francisco M. Couto:
The AgreementMakerLight Ontology Matching System. OTM Conferences 2013: 527-541 - [c30]Silvio Moreira, João Filgueiras, Bruno Martins, Francisco M. Couto, Mário J. Silva:
REACTION: A naive machine learning approach for sentiment classification. SemEval@NAACL-HLT 2013: 490-494 - [c29]Tiago Grego, Francisco R. Pinto, Francisco M. Couto:
LASIGE: using Conditional Random Fields and ChEBI ontology. SemEval@NAACL-HLT 2013: 660-666 - [c28]Catia Pesquita, Daniel Faria, Emanuel Santos, Francisco M. Couto:
To repair or not to repair: reconciling correctness and coherence in ontology reference alignments. OM 2013: 13-24 - [c27]Daniel Faria, Catia Pesquita, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto:
AgreementMakerLight results for OAEI 2013. OM 2013: 101-108 - [c26]Catia Pesquita, Daniel Faria, Cosmin Stroe, Emanuel Santos, Isabel F. Cruz, Francisco M. Couto:
What's in a 'nym'? Synonyms in Biomedical Ontology Matching. ISWC (1) 2013: 526-541 - [c25]Miguel Costa, Daniel Gomes, Francisco M. Couto, Mário J. Silva:
A survey of web archive search architectures. WWW (Companion Volume) 2013: 1045-1050 - [i7]Francisco M. Couto, Daniel Faria, Bruno Tavares, Pedro Gonçalves, Paulo Veríssimo:
Benchmarking some Portuguese S&T system research units. CoRR abs/1302.0420 (2013) - [i6]Emanuel Santos, Daniel Faria, Catia Pesquita, Francisco M. Couto:
Ontology alignment repair through modularization and confidence-based heuristics. CoRR abs/1307.5322 (2013) - [i5]Francisco M. Couto:
CIDS country rankings: comparing documents and citations of USA, UK and China top researchers. CoRR abs/1310.5597 (2013) - 2012
- [j8]Catia Pesquita, Francisco M. Couto:
Predicting the Extension of Biomedical Ontologies. PLoS Comput. Biol. 8(9) (2012) - [c24]Francisco M. Couto, João D. Ferreira, João Zamite, Carlos Santos, Tiago Posse, Paulo M. L. A. Graça, Dulce Domingos, Mário J. Silva:
The Epidemic Marketplace Platform: towards semantic characterization of epidemiological resources using biomedical ontologies. ICBO 2012 - [c23]João D. Ferreira, Catia Pesquita, Francisco M. Couto, Mário J. Silva:
Bringing epidemiology into the Semantic Web. ICBO 2012 - [c22]Tiago Grego, Francisco R. Pinto, Francisco M. Couto:
Identifying Chemical Entities based on ChEBI. ICBO 2012 - [c21]Catia M. Machado, Francisco M. Couto, Alexandra R. Fernandes, Susana Santos, Ana T. Freitas:
Toward a Translational Medicine Approach for Hypertrophic Cardiomyopathy. ITBAM 2012: 151-165 - [c20]David S. Batista, João D. Ferreira, Francisco M. Couto, Mário J. Silva:
Toponym Disambiguation Using Ontology-Based Semantic Similarity. PROPOR 2012: 179-185 - [i4]Daniel Faria, Catia Pesquita, Emanuel Santos, Francisco M. Couto, Cosmin Stroe, Isabel F. Cruz:
Testing the AgreementMaker System in the Anatomy Task of OAEI 2012. CoRR abs/1212.1625 (2012) - 2011
- [j7]Francisco M. Couto, Mário J. Silva:
Disjunctive shared information between ontology concepts: application to Gene Ontology. J. Biomed. Semant. 2: 5 (2011) - [j6]João Zamite, Fabrício A. B. da Silva, Francisco M. Couto, Mário J. Silva:
MEDCollector: Multisource Epidemic Data Collector. Trans. Large Scale Data Knowl. Centered Syst. 4: 40-72 (2011) - [c19]Isabel F. Cruz, Cosmin Stroe, Catia Pesquita, Francisco M. Couto, Valerie Cross:
Biomedical Ontology Matching Using the AgreementMaker System. ICBO 2011 - [c18]João D. Ferreira, Francisco M. Couto:
Generic Semantic Relatedness Measure for Biomedical Ontologies. ICBO 2011 - [c17]Catia Pesquita, Francisco M. Couto:
Where GO is Going and What it Means for Ontology Extension. ICBO 2011 - [c16]Bruno Tavares, Hugo P. Bastos, Daniel Faria, João D. Ferreira, Tiago Grego, Catia Pesquita, Francisco M. Couto:
The Biomedical Ontology Applications (BOA) Framework. ICBO 2011 - [c15]Isabel F. Cruz, Cosmin Stroe, Federico Caimi, Alessio Fabiani, Catia Pesquita, Francisco M. Couto, Matteo Palmonari:
Using AgreementMaker to align ontologies for OAEI 2011. OM 2011 - [i3]David S. Batista, Silvio Moreira, Mário J. Silva, Paula Carvalho, Francisco M. Couto:
REACTION at the Entity Linking task in KBP 2011. TAC 2011 - 2010
- [j5]João D. Ferreira, Francisco M. Couto:
Semantic Similarity for Automatic Classification of Chemical Compounds. PLoS Comput. Biol. 6(9) (2010) - [c14]Catia M. Machado, Francisco M. Couto, Alexandra R. Fernandes, Susana Santos, Nuno Cardim, Ana T. Freitas:
Semantic characterization of hypertrophic cardiomyopathy disease. BIBM Workshops 2010: 432-439 - [c13]David S. Batista, Mário J. Silva, Francisco M. Couto, Bibek Behera:
Geographic signatures for semantic retrieval. GIR 2010 - [c12]João Zamite, Fabrício A. B. da Silva, Francisco M. Couto, Mário J. Silva:
MEDCollector: Multisource Epidemic Data Collector. ITBAM 2010: 16-30 - [c11]Luis F. Lopes, Fabrício A. B. da Silva, Francisco M. Couto, João Zamite, Hugo Alexandre Ferreira, Carla Sousa, Mário J. Silva:
Epidemic Marketplace: An Information Management System for Epidemiological Data. ITBAM 2010: 31-44 - [c10]Catia Pesquita, Cosmin Stroe, Isabel F. Cruz, Francisco M. Couto:
BLOOMS on AgreementMaker: results for OAEI 2010. OM 2010 - [i2]Fabrício A. B. da Silva, Mário J. Silva, Francisco M. Couto:
Epidemic Marketplace: An e-Science Platform for Epidemic Modelling and Analysis. ERCIM News 2010(82): 43-44 (2010) - [i1]Catia M. Machado, Francisco M. Couto, Alexandra R. Fernandes, Susana Santos, Nuno Cardim, Ana T. Freitas:
Unraveling Hypertrophic Cardiomyopathy Variability. ERCIM News 2010(82): 48-49 (2010)
2000 – 2009
- 2009
- [j4]Catia Pesquita, Daniel Faria, André O. Falcão, Phillip W. Lord, Francisco M. Couto:
Semantic Similarity in Biomedical Ontologies. PLoS Comput. Biol. 5(7) (2009) - [c9]Catia M. Machado, Hugo P. Bastos, Francisco M. Couto:
GREAT: Gene Regulation EvAluation Tool. IWANN (2) 2009: 930-933 - [c8]Catia Pesquita, Tiago Grego, Francisco M. Couto:
Identifying Gene Ontology Areas for Automated Enrichment. IWANN (2) 2009: 934-941 - [c7]Tiago Grego, Piotr Pezik, Francisco M. Couto, Dietrich Rebholz-Schuhmann:
Identification of Chemical Entities in Patent Documents. IWANN (2) 2009: 942-949 - [c6]Catia Pesquita, Daniel Faria, Francisco M. Couto:
Measuring coherence between electronic and manual annotations in biological databases. SAC 2009: 806-807 - [p1]Francisco M. Couto, Mário J. Silva, Vivian Lee, Emily Dimmer, Evelyn Camon, Rolf Apweiler:
Verification of Uncurated Protein Annotations. Information Retrieval in Biomedicine 2009: 301-314 - 2008
- [j3]Catia Pesquita, Daniel Faria, Hugo P. Bastos, António E. N. Ferreira, André O. Falcão, Francisco M. Couto:
Metrics for GO based protein semantic similarity: a systematic evaluation. BMC Bioinform. 9(S-5) (2008) - [c5]Francisco M. Couto, Tiago Grego, Hugo P. Bastos, Catia Pesquita, Rafael P. Torres, Pablo Sanchez, Leandro Pascual, Christian Blaschke:
Identifying bioentity recognition errors of rule-based text-mining systems. ICDIM 2008: 733-738 - 2007
- [j2]Francisco M. Couto, Mário J. Silva, Pedro Coutinho:
Measuring semantic similarity between Gene Ontology terms. Data Knowl. Eng. 61(1): 137-152 (2007) - 2006
- [b1]Francisco M. Couto:
ReBIL: Relating Biological Information through Literature. University of Lisbon, Portugal, 2006 - [c4]Francisco M. Couto, Mário J. Silva, Pedro Coutinho:
Validating associations in biological databases. CIKM 2006: 142-151 - 2005
- [j1]Francisco M. Couto, Mário J. Silva, Pedro Coutinho:
Finding genomic ontology terms in text using evidence content. BMC Bioinform. 6(S-1) (2005) - [c3]Francisco M. Couto, Mário J. Silva, Pedro Coutinho:
Semantic similarity over the gene ontology: family correlation and selecting disjunctive ancestors. CIKM 2005: 343-344 - 2004
- [c2]Francisco M. Couto, Bruno Martins, Mário J. Silva:
Classifying biological articles using web resources. SAC 2004: 111-115 - 2003
- [c1]Francisco M. Couto, Mário J. Silva, Pedro Coutinho:
ProFAL: PROtein Functional Annotation through Literature. JISBD 2003: 747-756
Coauthor Index
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