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2020 – today

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2025
[j68]
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Mikel Val-Calvo, Mikel Egaña Aranguren, Juan M. Martínez-Hernández, Ginés Almagro-Hernández, Prashant Deshmukh, José Antonio Bernabé-Díaz, Paola Espinoza-Arias, José Luis Sánchez-Fernández, Juergen Mueller, Jesualdo Tomás Fernández-Breis:
OntoGenix: Leveraging Large Language Models for enhanced ontology engineering from datasets. Inf. Process. Manag. 62(3): 104042 (2025)
[j67]
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Ginés Almagro-Hernández, Juan M. Martínez-Hernández, Prashant Deshmukh, José Antonio Bernabé-Díaz, José Luis Sánchez-Fernández, Paola Espinoza-Arias, Juergen Mueller, Jesualdo Tomás Fernández-Breis:
Evaluation of alignment methods to support the assessment of similarity between e-commerce knowledge graphs. Knowl. Based Syst. 315: 113283 (2025)
2024
[j66]
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Eduardo Illueca Fernández, Antonio Jesús Jara Valera, Jesualdo Tomás Fernández-Breis:
Improving Air Quality Zoning Through Deep Learning and Hyperlocal Measurements. IEEE Access 12: 38700-38716 (2024)
[j65]
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Rosana Abdoune, Lydia Lazib, Farida Bouarab-Dahmani, Jesualdo Tomás Fernández-Breis:
ONTO-TDM domain ontology population for a specific discipline. Appl. Ontology 19(3): 265-285 (2024)
[j64]
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Eduardo Illueca Fernández, Antonio Jesús Jara Valera, Jesualdo Tomás Fernández-Breis:
Embedded machine learning of IoT streams to promote early detection of unsafe environments. Internet Things 25: 101128 (2024)
[c71]
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Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Alexander García Castro, Markus Rompe:
The cybersecurity ontology network: The first building block for a comprehensive cybersecurity knowledge graph (short paper). JOWO 2024
[c70]
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Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis, Alexander García Castro, Andreas Rathgeb, Lars Nissen:
Ontology network for the standardization of the EU CBAM report data (short paper). JOWO 2024
[c69]
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Francisco Javier Redondo-Aniorte, Francisco Abad Navarro, Jesualdo Tomás Fernández-Breis:
Analysis of the Impact of Orthogonality in the Readability of the OBO Foundry Ontologies. WorldCIST (3) 2024: 160-169
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Italo Jose da Silva Oliveira, Pedro Paulo F. Barcelos, Rodrigo F. Calhau, Claudenir M. Fonseca, Guendalina Righetti, Stefano De Giorgis, Gabriele Sacco, Maria M. Hedblom, Oliver Kutz, Martin Glauer, Mirjam Stappel, Cássia Trojahn, María Poveda-Villalón, Daniel Garijo, César Henrique Bernabé, Asiyah Yu Lin, Francesco Compagno, Anna Fensel, Walter Terkaj, Greta Adamo, Damion M. Dooley, Michaela Kümpel, Georgeta Bordea, Robert Warren, Anoosha Sehar, Matthew Lange, Felix Bindt, Ido Toxopeus, Davide Audrito, Francesca Grasso, Roberto Nai, Emilio Sulis, John Beverley, Mark Jensen, Sergio de Cesare, Frederik Gailly, Chris Partridge, Oscar Pastor, Alexander García Castro, Thomas Hubauer, Wolfgang Süß, Philipp Schmurr, Max Willis, Daniele Francesco Santamaria, Thijs van Ede, Dan Klein, Gal Engelberg, Gianpietro Castiglione, Giampaolo Bella, Andrea Continella, Giancarlo Guizzardi, Davide Lanti, Alessandro Mosca, Federico Maria Scafoglieri, Guohui Xiao, Krzysztof Kutt, Jesualdo Tomás Fernández-Breis, Alois Pichler, Gábor Palkó, Grzegorz J. Nalepa, Pawel Garbacz, Robert Pergl, Zubeida Casmod Khan, João Moreira, Adrien Barton, Emilio M. Sanfilippo, Laura Daniele, João Paulo A. Almeida, Enrico Franconi, Paul Johannesson, Chiara Ghidini, Veruska Zamborlini:
Proceedings of the Joint Ontology Workshops (JOWO) - Episode X: The Tukker Zomer of Ontology, and satellite events co-located with the 14th International Conference on Formal Ontology in Information Systems (FOIS 2024), Enschede, The Netherlands, July 15-19, 2024. CEUR Workshop Proceedings 3882, CEUR-WS.org 2024 [contents]
2023
[j63]
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Francisco Abad Navarro, Catalina Martínez-Costa, Jesualdo Tomás Fernández-Breis:
HURON: A Quantitative Framework for Assessing Human Readability in Ontologies. IEEE Access 11: 101833-101851 (2023)
[c68]
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José Antonio Miñarro-Giménez, Carlos Fernández-Llatas, Begoña Martínez-Salvador, Catalina Martínez-Costa, Mar Marcos, Jesualdo Tomás Fernández-Breis:
Ontology Model for Supporting Process Mining on Healthcare-Related Data. AIME 2023: 352-356
2022
[j62]
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Philip van Damme, Jesualdo Tomás Fernández-Breis, Nirupama Benis, José Antonio Miñarro-Giménez, Nicolette F. de Keizer, Ronald Cornet:
Performance assessment of ontology matching systems for FAIR data. J. Biomed. Semant. 13(1): 19 (2022)
[j61]
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José Antonio Bernabé-Díaz, Manuel Franco, Juana-María Vivo, Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis:
An automated process for supporting decisions in clustering-based data analysis. Comput. Methods Programs Biomed. 219: 106765 (2022)
[j60]
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Javier Díaz Alonso, Francisco Abad Navarro, María Eugenia de la Morena-Barrio, Javier Corral, Jesualdo Tomás Fernández-Breis:
Using Machine Learning for Predicting the Effect of Mutations in the Initiation Codon. IEEE J. Biomed. Health Informatics 26(11): 5750-5756 (2022)
[i3]
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Antonio Ruiz-Martínez, Linda J. Castañeda, Jesualdo Tomás Fernández-Breis:
A systematic literature review on the development and use of mobile learning (web) apps by early adopters. CoRR abs/2212.13480 (2022)
2021
[j59]
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Francisco Abad Navarro, Catalina Martínez-Costa, Jesualdo Tomás Fernández-Breis:
Semankey: A Semantics-Driven Approach for Querying RDF Repositories Using Keywords. IEEE Access 9: 91282-91302 (2021)
[j58]
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Alejandro Rodríguez González, Sebastián Ventura Soto, Paolo Soda, Jesualdo Tomás Fernández-Breis:
Introduction to the special issue on Methods and applications in the analysis of social data in healthcare. Inf. Process. Manag. 58(1): 102427 (2021)
2020
[j57]
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José Antonio Bernabé-Díaz, Manuel Franco, Juana María Vivo-Molina, Manuel Quesada-Martínez, Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis:
An Automated Process for the Repository-Based Analysis of Ontology Structural Metrics. IEEE Access 8: 148722-148743 (2020)
[j56]
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Manuel Franco, Juana-María Vivo, Manuel Quesada-Martínez, Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis:
Evaluation of ontology structural metrics based on public repository data. Briefings Bioinform. 21(2): 473-485 (2020)
[j55]
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José Alberto Maldonado, Mar Marcos, Jesualdo Tomás Fernández-Breis, Vicente Miguel Giménez-Solano, María Del Carmen Legaz-García, Begoña Martínez-Salvador:
CLIN-IK-LINKS: A platform for the design and execution of clinical data transformation and reasoning workflows. Comput. Methods Programs Biomed. 197: 105616 (2020)
[j54]
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Francisco Abad Navarro, Manuel Quesada-Martínez, Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis:
Analysis of readability and structural accuracy in SNOMED CT. BMC Medical Informatics Decis. Mak. 20-S(10): 284 (2020)
[c67]
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Ginés Almagro-Hernández, Jesualdo Tomás Fernández-Breis:
Discovering the Most Characteristic Motif from a Set of Peak Sequences. IWBBIO 2020: 445-456
[i2]
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Rutger A. Vos, Toshiaki Katayama, Hiroyuki Mishima, Shin Kawano, Shuichi Kawashima, Jin-Dong Kim, Yuki Moriya, Toshiaki Tokimatsu, Atsuko Yamaguchi, Yasunori Yamamoto, Hongyan Wu, Peter Amstutz, Erick Antezana, Nobuyuki P. Aoki, Kazuharu Arakawa, Jerven T. Bolleman, Evan E. Bolton, Raoul Jean Pierre Bonnal, Hidemasa Bono, Kees Burger, Hirokazu Chiba, Kevin Bretonnel Cohen, Eric W. Deutsch, Jesualdo Tomás Fernández-Breis, Gang Fu, Takatomo Fujisawa, Atsushi Fukushima, Alexander García Castro, Naohisa Goto, Tudor Groza, Colin Hercus, Robert Hoehndorf, Kotone Itaya, Nick S. Juty, Takeshi Kawashima, Jee-Hyub Kim, Akira R. Kinjo, Masaaki Kotera, Kouji Kozaki, Sadahiro Kumagai, Tatsuya Kushida, Thomas Lütteke, Masaaki Matsubara, Joe Miyamoto, Attayeb Mohsen, Hiroshi Mori, Yuki Naito, Takeru Nakazato, Jeremy NguyenXuan, Kozo Nishida, Naoki Nishida, Hiroyo Nishide, Soichi Ogishima, Tazro Ohta, Shujiro Okuda, Benedict Paten, Jean-Luc Perret, Philip Prathipati, Pjotr Prins, Núria Queralt-Rosinach, Daisuke Shinmachi, Shinya Suzuki, Tsuyosi Tabata, Terue Takatsuki, Kieron R. Taylor, Mark Thompson, Ikuo Uchiyama, Bruno Vieira, Chih-Hsuan Wei, Mark D. Wilkinson, Issaku Yamada, Ryota Yamanaka, Kazutoshi Yoshitake, Akiyasu C. Yoshizawa, Michel Dumontier, Kenjiro Kosaki, Toshihisa Takagi:
BioHackathon 2015: Semantics of data for life sciences and reproducible research. F1000Research 9: 136 (2020)

2010 – 2019

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2019
[j53]
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José Antonio Bernabé-Díaz, María Del Carmen Legaz-García, José M. García, Jesualdo Tomás Fernández-Breis:
Efficient, semantics-rich transformation and integration of large datasets. Expert Syst. Appl. 133: 198-214 (2019)
[c66]
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Ignacio Martinez Soriano, Juan Luis Castro Peña, Jesualdo Tomás Fernández-Breis, Ignacio San Román, Adrian Alonso Barriuso, David Guevara Baraza:
Snomed2Vec: Representation of SNOMED CT Terms with Word2Vec. CBMS 2019: 678-683
[c65]
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José Antonio Vera-Ramos, Belén Juanes-Cortés, Jesualdo Tomás Fernández-Breis, Pascale Gaudet, Martin Kuiper, Astrid Lægreid, Colin Logie, María del Mar Roldán García, Stefan Schulz:
An Example of Multimodal Biological Knowledge Representation. JOWO 2019
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Lazrak Noussair, Jesualdo Tomás Fernández-Breis, Jihad Zahir, Hajar Mousannif:
Towards Distributed Learning in Internet of Things. Air Quality Monitoring Use Case. MEDI Workshops 2019: 154-159
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Toshiaki Katayama, Shuichi Kawashima, Gos Micklem, Shin Kawano, Jin-Dong Kim, Simon Kocbek, Shinobu Okamoto, Yue Wang, Hongyan Wu, Atsuko Yamaguchi, Yasunori Yamamoto, Erick Antezana, Kiyoko F. Aoki-Kinoshita, Kazuharu Arakawa, Masaki Banno, Joachim Baran, Jerven T. Bolleman, Raoul Jean Pierre Bonnal, Hidemasa Bono, Jesualdo Tomás Fernández-Breis, Robert M. Buels, Matthew P. Campbell, Hirokazu Chiba, Peter J. A. Cock, Kevin Bretonnel Cohen, Michel Dumontier, Takatomo Fujisawa, Toyofumi Fujiwara, Leyla J. García, Pascale Gaudet, Emi Hattori, Robert Hoehndorf, Kotone Itaya, Maori Ito, Daniel Jamieson, Simon Jupp, Nick S. Juty, Alex Kalderimis, Fumihiro Kato, Hideya Kawaji, Takeshi Kawashima, Akira R. Kinjo, Yusuke Komiyama, Masaaki Kotera, Tatsuya Kushida, James Malone, Masaaki Matsubara, Satoshi Mizuno, Sayaka Mizutani, Hiroshi Mori, Yuki Moriya, Katsuhiko Murakami, Takeru Nakazato, Hiroyo Nishide, Yosuke Nishimura, Soichi Ogishima, Tazro Ohta, Shujiro Okuda, Hiromasa Ono, Yasset Pérez-Riverol, Daisuke Shinmachi, Andrea Splendiani, Francesco Strozzi, Shinya Suzuki, Junichi Takehara, Mark Thompson, Toshiaki Tokimatsu, Ikuo Uchiyama, Karin Verspoor, Mark D. Wilkinson, Sarala M. Wimalaratne, Issaku Yamada, Nozomi Yamamoto, Masayuki Yarimizu, Shoko Kawamoto, Toshihisa Takagi:
BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services. F1000Research 8: 1677 (2019)
2018
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Kristoffer Forslund, Cécile Pereira, Salvador Capella-Gutiérrez, Alan W. Sousa da Silva, Adrian M. Altenhoff, Jaime Huerta-Cepas, Matthieu Muffato, Mateus Patricio, Klaas Vandepoele, Ingo Ebersberger, Judith A. Blake, Jesualdo Tomás Fernández-Breis, The Quest for Orthologs Consortium, Brigitte Boeckmann, Toni Gabaldón, Erik L. L. Sonnhammer, Christophe Dessimoz, Suzanna Lewis:
Gearing up to handle the mosaic nature of life in the quest for orthologs. Bioinform. 34(2): 323-329 (2018)
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Francisco Abad Navarro, María Eugenia de la Morena-Barrio, Jesualdo Tomás Fernández-Breis, Javier Corral:
Lost in translation: bioinformatic analysis of variations affecting the translation initiation codon in the human genome. Bioinform. 34(22): 3788-3794 (2018)
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Philip van Damme, Manuel Quesada-Martínez, Ronald Cornet, Jesualdo Tomás Fernández-Breis:
From lexical regularities to axiomatic patterns for the quality assurance of biomedical terminologies and ontologies. J. Biomed. Informatics 84: 59-74 (2018)
[j49]
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Francisco Abad Navarro, Jesualdo Tomás Fernández-Breis:
Getting answers from semantic repositories: a keywords-based approach. Proces. del Leng. Natural 61: 39-46 (2018)
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Manuel Quesada-Martínez, Mar Marcos, Francisco Abad Navarro, Begoña Martínez-Salvador, Jesualdo Tomás Fernández-Breis:
Towards the semantic enrichment of Computer Interpretable Guidelines: a method for the identification of relevant ontological terms. AMIA 2018
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José Antonio Bernabé-Díaz, María Del Carmen Legaz-García, José M. García, Jesualdo Tomás Fernández-Breis:
Application of High Performance Computing Techniques to the Semantic Data Transformation. WorldCIST (1) 2018: 691-700
2017
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Angel Esteban-Gil, Jesualdo Tomás Fernández-Breis, Martin Boeker:
Analysis and visualization of disease courses in a semantically-enabled cancer registry. J. Biomed. Semant. 8(1): 46:1-46:16 (2017)
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Manuel Quesada-Martínez, Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis:
OntoEnrich: Una plataforma para el análisis léxico de ontologías orientado a su enriquecimiento axiomático. Proces. del Leng. Natural 59: 171-174 (2017)
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Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis:
Studying the Reuse of Content in Biomedical Ontologies: An Axiom-Based Approach. AIME 2017: 3-13
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Aarón Ayllón-Benítez, Patricia Thébault, Jesualdo Tomás Fernández-Breis, Manuel Quesada-Martínez, Fleur Mougin, Romain Bourqui:
Deciphering Gene Sets Annotations with Ontology Based Visualization. IV 2017: 170-175
[c59]
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José Antonio Bernabé-Díaz, María Del Carmen Legaz-García, José Manuel García Carrasco, Jesualdo Tomás Fernández-Breis:
Optimizing Semantic Data Transformation Using High Performance Computing Techniques. SWAT4LS 2017
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Tarcisio M. Farias, Hirokazu Chiba, Jesualdo Tomás Fernández-Breis:
Leveraging Logical Rules for Efficacious Representation of Large Orthology Datasets. SWAT4LS 2017
2016
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María Del Carmen Legaz-García, José Antonio Miñarro-Giménez, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Generation of open biomedical datasets through ontology-driven transformation and integration processes. J. Biomed. Semant. 7: 32 (2016)
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Jesualdo Tomás Fernández-Breis, Hirokazu Chiba, María Del Carmen Legaz-García, Ikuo Uchiyama:
The Orthology Ontology: development and applications. J. Biomed. Semant. 7: 34 (2016)
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Astrid Duque-Ramos, Manuel Quesada-Martínez, Miguela Iniesta-Moreno, Jesualdo Tomás Fernández-Breis, Robert Stevens:
Supporting the analysis of ontology evolution processes through the combination of static and dynamic scaling functions in OQuaRE. J. Biomed. Semant. 7: 63 (2016)
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María Del Carmen Legaz-García, Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
A semantic web based framework for the interoperability and exploitation of clinical models and EHR data. Knowl. Based Syst. 105: 175-189 (2016)
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José Alberto Maldonado, Mar Marcos, Jesualdo Tomás Fernández-Breis, Estibaliz Parcero, Diego Boscá, María Del Carmen Legaz-García, Begoña Martínez-Salvador, Montserrat Robles:
A platform for exploration into chaining of web services for clinical data transformation and reasoning. AMIA 2016
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Ginés Almagro-Hernández, Francisco García-Sánchez, María Eugenia de la Morena-Barrio, Javier Corral, Jesualdo Tomás Fernández-Breis:
Angel: Towards a Multi-level Method for the Analysis of Variants in Individual Genomes. IWBBIO 2016: 47-58
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Jesualdo Tomás Fernández-Breis, Manuel Quesada-Martínez, Astrid Duque-Ramos:
Can Existing Biomedical Ontologies Be More Useful for EHR and CDS? KR4HC/ProHealth@HEC 2016: 3-20
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Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis, Daniel Karlsson:
Suggesting Missing Relations in Biomedical Ontologies Based on Lexical Regularities. MIE 2016: 384-388
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José Antonio Miñarro-Giménez, Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis, Stefan Schulz:
Publishing Biomedical Predication Repository About MeSH Co-Occurrences in MEDLINE. MIE 2016: 765-769
[c52]
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Angel Esteban-Gil, Jesualdo Tomás Fernández-Breis:
Case Report Form based on semantic Web technologies. SWAT4LS 2016
[c51]
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Angel Esteban-Gil, Jesualdo Tomás Fernández-Breis:
Easy-to-use Semantic Search of Pharmacological Data. SWAT4LS 2016
2015
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Manuel Quesada-Martínez, Eleni Mikroyannidi, Jesualdo Tomás Fernández-Breis, Robert Stevens:
Approaching the axiomatic enrichment of the Gene Ontology from a lexical perspective. Artif. Intell. Medicine 65(1): 35-48 (2015)
[j41]
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María Del Carmen Legaz-García, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis, Christopher G. Chute, Cui Tao:
Transformation of standardized clinical models based on OWL technologies: from CEM to OpenEHR archetypes. J. Am. Medical Informatics Assoc. 22(3): 536-544 (2015)
[c50]
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Manuel Quesada-Martínez, Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis:
Analysis of the evolution of ontologies using OQuaRE: application to EDAM. ICBO 2015
[c49]
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María Del Carmen Legaz-García, José Antonio Miñarro-Giménez, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Lessons learned in the generation of biomedical research datasets using Semantic Open Data technologies. MIE 2015: 165-169
[c48]
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Jesualdo Tomás Fernández-Breis, María Del Carmen Legaz-García, Hirokazu Chiba, Ikuo Uchiyama:
Towards the Semantic Standardization of Orthology Content. SWAT4LS 2015: 74-83
[c47]
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Angel Esteban-Gil, Jesualdo Tomás Fernández-Breis, Clara Miranda-Lopez:
Performance Evaluation of Human Resources in a Hospital. SWAT4LS 2015: 199-200
2014
[j40]
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Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Michel Dumontier:
Special issue on Linked Data for Health Care and the Life Sciences. Semantic Web 5(2): 99-100 (2014)
[j39]
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José Antonio Miñarro-Giménez, Mikel Egaña Aranguren, Boris Villazón-Terrazas, Jesualdo Tomás Fernández-Breis:
Translational research combining orthologous genes and human diseases with the OGOLOD dataset. Semantic Web 5(2): 145-149 (2014)
[c46]
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Catalina Martínez-Costa, María Del Carmen Legaz-García, Stefan Schulz, Jesualdo Tomás Fernández-Breis:
Ontology-based infrastructure for a meaningful EHR representation and use. BHI 2014: 535-538
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Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis, Robert Stevens, Nathalie Aussenac-Gilles:
OntoEnrich: A Platform for the Lexical Analysis of Ontologies. EKAW (Satellite Events) 2014: 172-176
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Eleni Mikroyannidi, Manuel Quesada-Martínez, Dmitry Tsarkov, Jesualdo Tomás Fernández-Breis, Robert Stevens, Ignazio Palmisano:
A Quality Assurance Workflow for Ontologies Based on Semantic Regularities. EKAW 2014: 288-303
[c43]
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María Del Carmen Legaz-García, Catalina Martínez-Costa, José Antonio Miñarro-Giménez, Jesualdo Tomás Fernández-Breis, Stefan Schulz, Marcos Menárguez Tortosa:
Ontology patterns-based transformation of clinical information. MIE 2014: 1018-1022
[c42]
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Angel Esteban-Gil, Jesualdo Tomás Fernández-Breis, Martin Boeker:
Analysis and Visualization of Disease Courses in a Semantic Enabled Cancer Registry. SWAT4LS 2014
2013
[j38]
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Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Erick Antezana, Chris Mungall, Alejandro Rodríguez González, Mark D. Wilkinson:
OPPL-Galaxy, a Galaxy tool for enhancing ontology exploitation as part of bioinformatics workflows. J. Biomed. Semant. 4: 2 (2013)
[j37]
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Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis, Miguela Iniesta-Moreno, Michel Dumontier, Mikel Egaña Aranguren, Stefan Schulz, Nathalie Aussenac-Gilles, Robert Stevens:
Evaluation of the OQuaRE framework for ontology quality. Expert Syst. Appl. 40(7): 2696-2703 (2013)
[j36]
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Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
OWL-based reasoning methods for validating archetypes. J. Biomed. Informatics 46(2): 304-317 (2013)
[j35]
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Alejandro Rodríguez González, Miguel Angel Mayer, Jesualdo Tomás Fernández-Breis:
Biomedical information through the implementation of social media environments. J. Biomed. Informatics 46(6): 955-956 (2013)
[c41]
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Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis, Robert Stevens:
Lexical Characterization and Analysis of the BioPortal Ontologies. AIME 2013: 206-215
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E. Alan Calvillo, Alejandro Padilla, Jaime Muñoz Arteaga, Julio Ponce, Jesualdo Tomás Fernández-Breis:
Searching research papers using clustering and text mining. CONIELECOMP 2013: 78-81
[c39]
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Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis, Robert Stevens:
Analysis and Classification of Bio-ontologies by the Structure of their Labels. IWBBIO 2013: 713-720
[c38]
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Catalina Martínez-Costa, Diego Boscá, María Del Carmen Legaz-García, Cui Tao, Jesualdo Tomás Fernández-Breis, Stefan Schulz, Christopher G. Chute:
Isosemantic Rendering of Clinical Information Using Formal Ontologies and RDF. MedInfo 2013: 1085
2012
[j34]
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Rafael Valencia-García, Francisco García-Sánchez, Cristina Casado-Lumbreras, Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis:
Informal learning through expertise mining in the social web. Behav. Inf. Technol. 31(8): 757-766 (2012)
[j33]
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Jesualdo Tomás Fernández-Breis, Dagoberto Castellanos Nieves, José Hernández-Franco, Celia Soler-Segovia, María del Carmen Robles-Redondo, Rodrigo González-Martínez, Maria Paz Prendes-Espinosa:
A semantic platform for the management of the educative curriculum. Expert Syst. Appl. 39(5): 6011-6019 (2012)
[j32]
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Angel Esteban-Gil, Francisco García-Sánchez, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis:
SocialBROKER: A collaborative social space for gathering semantically-enhanced financial information. Expert Syst. Appl. 39(10): 9715-9722 (2012)
[j31]
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José Alberto Maldonado, Catalina Martínez-Costa, David Moner, Marcos Menárguez Tortosa, Diego Boscá, José Antonio Miñarro-Giménez, Jesualdo Tomás Fernández-Breis, Montserrat Robles:
Using the ResearchEHR platform to facilitate the practical application of the EHR standards. J. Biomed. Informatics 45(4): 746-762 (2012)
[j30]
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Marcos Menárguez Tortosa, Catalina Martínez-Costa, Jesualdo Tomás Fernández-Breis:
A Generative Tool for Building Health Applications Driven by ISO 13606 Archetypes. J. Medical Syst. 36(5): 3063-3075 (2012)
[j29]
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María del Mar Sánchez-Vera, Jesualdo Tomás Fernández-Breis, Dagoberto Castellanos Nieves, Francisco Frutos-Morales, Maria Paz Prendes-Espinosa:
Semantic Web technologies for generating feedback in online assessment environments. Knowl. Based Syst. 33: 152-165 (2012)
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Manuel Quesada-Martínez, Jesualdo Tomás Fernández-Breis, Robert Stevens:
Extraction and analysis of the structure of labels in biomedical ontologies. MIX-HS 2012: 7-16
[c36]
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María Del Carmen Legaz-García, Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Exploitation of ontologies for the management of clinical archetypes in ArchMS. ICBO 2012
[c35]
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José Antonio Miñarro-Giménez, Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Erick Antezana:
NCBO-Galaxy: bridging the BioPortal web services and the Galaxy platform. ICBO 2012
2011
[j28]
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Astrid Duque-Ramos, Jesualdo Tomás Fernández-Breis, Robert Stevens, Nathalie Aussenac-Gilles:
OQuaRE: A SQuaRE-based Approach for Evaluating the Quality of Ontologies. J. Res. Pract. Inf. Technol. 43(2): 159-176 (2011)
[j27]
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Juana María Ruiz-Martínez, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Francisco García-Sánchez, Rodrigo Martínez-Béjar:
Ontology learning from biomedical natural language documents using UMLS. Expert Syst. Appl. 38(10): 12365-12378 (2011)
[j26]
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Eduardo Lupiani-Ruiz, Ignacio García-Manotas, Rafael Valencia-García, Francisco García-Sánchez, Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis, Juan Bosco Camón-Herrero:
Financial news semantic search engine. Expert Syst. Appl. 38(12): 15565-15572 (2011)
[j25]
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Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis, Rafael Valencia-García, Rodrigo Martínez-Béjar, Miguela Iniesta-Moreno:
Semantic Web Technologies for supporting learning assessment. Inf. Sci. 181(9): 1517-1537 (2011)
[j24]
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Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Clinical data interoperability based on archetype transformation. J. Biomed. Informatics 44(5): 869-880 (2011)
[j23]
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José Antonio Miñarro-Giménez, Mikel Egaña Aranguren, Rodrigo Martínez-Béjar, Jesualdo Tomás Fernández-Breis, Marisa Madrid:
Semantic integration of information about orthologs and diseases: The OGO system. J. Biomed. Informatics 44(6): 1020-1031 (2011)
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Rafael Valencia-García, Francisco García-Sánchez, Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis:
OWLPath: An OWL Ontology-Guided Query Editor. IEEE Trans. Syst. Man Cybern. Part A 41(1): 121-136 (2011)
[c34]
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María Del Carmen Legaz-García, José Antonio Miñarro-Giménez, Marisa Madrid, Santiago Torres Martínez, Jesualdo Tomás Fernández-Breis:
Using ontologies for supporting genomic sequence annotation projects. BCB 2011: 617-625
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José Antonio Miñarro-Giménez, Jesualdo Tomás Fernández-Breis:
Ontology-Driven Method for Integrating Biomedical Repositories. CAEPIA 2011: 473-482
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José Antonio Miñarro-Giménez, Teddy G. Miranda-Mena, Rodrigo Martínez-Béjar, Jesualdo Tomás Fernández-Breis:
Exploitation of Translational Bioinformatics for Decision-Making on Cancer Treatments. ITBAM 2011: 1-15
[c31]
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Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Validation of the openEHR Archetype Library by using OWL Reasoning. MIE 2011: 789-793
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Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Erick Antezana:
OPPL-Galaxy: enhancing ontology exploitation in galaxy with OPPL. SWAT4LS 2011: 12-19
[c29]
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Angel Esteban-Gil, Francisco García-Sánchez, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis:
A Social-Empowered Platform for Gathering Semantic Information. WSKS 2011: 534-539
[c28]
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Jesualdo Tomás Fernández-Breis, Francisco Frutos-Morales, Angel Esteban-Gil, Dagoberto Castellanos Nieves, Rafael Valencia-García, Francisco García-Sánchez, María del Mar Sánchez-Vera:
Recommendation of Personalized Learning Contents Supported by Semantic Web Technologies. WSKS 2011: 540-545
2010
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Francisco Jesús Torralba-Rodríguez, Vicente Bixquert Montagud, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar:
An incremental knowledge acquisition-based system for supporting decisions in biomedical domains. Comput. Methods Programs Biomed. 98(2): 161-171 (2010)
[j20]
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Francisco Jesús Torralba-Rodríguez, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar, Vicente Bixquert Montagud:
An incremental knowledge acquisition-based system for critical domains. Expert Syst. Appl. 37(4): 2838-2847 (2010)
[j19]
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Rafael Valencia-García, Francisco García-Sánchez, Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis, Ambrosio Toval:
Exploitation of social semantic technology for software development team configuration. IET Softw. 4(6): 373-385 (2010)
[j18]
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Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
An approach for the semantic interoperability of ISO EN 13606 and OpenEHR archetypes. J. Biomed. Informatics 43(5): 736-746 (2010)
[j17]
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Mariano Rico, Francisco García-Sánchez, Juan Miguel Gómez, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis:
Enabling Intelligent Service Discovery with GGODO. J. Inf. Sci. Eng. 26(4): 1161-1180 (2010)
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María del Mar Sánchez-Vera, Francisco Frutos-Morales, M. D. Castellanos-Nieves, Maria Paz Prendes-Espinosa, Jesualdo Tomás Fernández-Breis, C. Cruz-Corona:
Generation of Useful Semantic Feedback for Students and Teachers. CSEDU (1) 2010: 221-226
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Montserrat Robles, Jesualdo Tomás Fernández-Breis, José Alberto Maldonado, David Moner, Catalina Martínez-Costa, Diego Boscá, Marcos Menárguez Tortosa:
ResearchEHR: Use of semantic web technologies and archetypes for the description of EHRs. EFMI-STC 2010: 129-135
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Jesualdo Tomás Fernández-Breis, Luigi Iannone, Ignazio Palmisano, Alan L. Rector, Robert Stevens:
Enriching the Gene Ontology via the Dissection of Labels Using the Ontology Pre-processor Language. EKAW 2010: 59-73
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Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
OWL-based Reasoning Methods for Validating Archetyped Clinical Knowledge. EKAW (Posters and Demos) 2010
[c23]
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José Antonio Miñarro-Giménez, Mikel Egaña Aranguren, Francisco García-Sánchez, Jesualdo Tomás Fernández-Breis:
A Semantic Query Interface for the OGO Platform. ITBAM 2010: 128-142
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Catalina Martínez-Costa, José Antonio Miñarro-Giménez, Marcos Menárguez Tortosa, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis:
Flexible Semantic Querying of Clinical Archetypes. KES (1) 2010: 597-606

2000 – 2009

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2009
[j16]
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Joaquín Lasheras, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Ambrosio Toval:
Modelling Reusable Security Requirements based on an Ontology Framework. J. Res. Pract. Inf. Technol. 41(2): 119-134 (2009)
[j15]
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José Antonio Miñarro-Giménez, Marisa Madrid, Jesualdo Tomás Fernández-Breis:
OGO: an ontological approach for integrating knowledge about orthology. BMC Bioinform. 10(S-10): 13 (2009)
[j14]
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Anatoly Jasonovich Gladun, Julia Vitalijevna Rogushina, Francisco García-Sánchez, Rodrigo Martínez-Béjar, Jesualdo Tomás Fernández-Breis:
An application of intelligent techniques and semantic web technologies in e-learning environments. Expert Syst. Appl. 36(2): 1922-1931 (2009)
[j13]
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Francisco García-Sánchez, Rafael Valencia-García, Rodrigo Martínez-Béjar, Jesualdo Tomás Fernández-Breis:
An ontology, intelligent agent-based framework for the provision of semantic web services. Expert Syst. Appl. 36(2): 3167-3187 (2009)
[j12]
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José Alberto Maldonado, David Moner, Diego Boscá, Jesualdo Tomás Fernández-Breis, Carlos Angulo, Montserrat Robles:
LinkEHR-Ed: A multi-reference model archetype editor based on formal semantics. Int. J. Medical Informatics 78(8): 559-570 (2009)
[j11]
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Jesualdo Tomás Fernández-Breis, Dagoberto Castellanos Nieves, Rafael Valencia-García:
Measuring individual learning performance in group work from a knowledge integration perspective. Inf. Sci. 179(4): 339-354 (2009)
[j10]
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Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis, José Alberto Maldonado:
A model-driven approach for representing clinical archetypes for Semantic Web environments. J. Biomed. Informatics 42(1): 150-164 (2009)
[c21]
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Ignacio Sanchez-Peral, Francisco García-Sánchez, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar:
Towards Adaptable Semantic Grid Services Execution Environments. ICNS 2009: 468-473
[c20]
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Catalina Martínez-Costa, Marcos Menárguez Tortosa, Jesualdo Tomás Fernández-Breis:
Towards ISO 13606 and openEHR Archetype-Based Semantic Interoperability. MIE 2009: 260-264
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Francisco García-Sánchez, Renato Vidoni, Rodrigo Martínez-Béjar, Alessandro Gasparetto, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis:
Bridging the Gap between the Logical and the Physical Worlds. PAAMS 2009: 411-420
[c18]
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José Antonio Miñarro-Giménez, Marisa Madrid, Jesualdo Tomás Fernández-Breis:
Semantic integration and exploitation of orthology information and genetic disorders. SWAT4LS 2009
2008
[j9]
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Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Juana María Ruiz-Martínez, Francisco García-Sánchez, Rodrigo Martínez-Béjar:
A knowledge acquisition methodology to ontology construction for information retrieval from medical documents. Expert Syst. J. Knowl. Eng. 25(3): 314-334 (2008)
[j8]
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Francisco García-Sánchez, Jesualdo Tomás Fernández-Breis, Rafael Valencia-García, Juan Miguel Gómez, Rodrigo Martínez-Béjar:
Combining Semantic Web technologies with Multi-Agent Systems for integrated access to biological resources. J. Biomed. Informatics 41(5): 848-859 (2008)
[c17]
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Juana María Ruiz-Martínez, José Antonio Miñarro-Giménez, Laura Guillén-Cárceles, Dagoberto Castellanos Nieves, Rafael Valencia-García, Francisco García-Sánchez, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar:
Populating Ontologies in the eTourism Domain. Web Intelligence/IAT Workshops 2008: 316-319
[c16]
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Francisco García-Sánchez, Rodrigo Martínez-Béjar, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis:
Knowledge Technologies-Based Multi-Agent System for Semantic Web Services Environments. ICAISC 2008: 1222-1233
[c15]
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Juana María Ruiz-Martínez, Dagoberto Castellanos Nieves, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Francisco García-Sánchez, Pedro José Vivancos Vicente, Juan Salvador Castejón-Garrido, Juan Bosco Camón-Herrero, Rodrigo Martínez-Béjar:
Accessing Touristic Knowledge Bases through a Natural Language Interface. PKAW 2008: 147-160
[c14]
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Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis, Rafael Valencia-García, Carlos Cruz, Maria Paz Prendes-Espinosa, Rodrigo Martínez-Béjar:
Using Semantic Web Technologies for the Assessment of Open Questions. PRICAI 2008: 42-53
[c13]
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Joaquín Lasheras, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, José Ambrosio Toval Álvarez:
An Ontology-Based Framework for Modelling Security Requirements. WOSIS 2008: 78-88
[c12]
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José Antonio Miñarro-Giménez, Marisa Madrid, Jesualdo Tomás Fernández-Breis:
An Integrated Ontological Knowledge Base About Orthologous Genes and Proteins. SWAT4LS 2008
2007
[c11]
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José Alberto Maldonado, David Moner, Diego Tomás, Carlos Angulo, Montserrat Robles, Jesualdo Tomás Fernández-Breis:
Framework for Clinical Data Standardization Based on Archetypes. MedInfo 2007: 454-458
2006
[j7]
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Francisco García-Sánchez, Rodrigo Martínez-Béjar, Leonardo Contreras, Jesualdo Tomás Fernández-Breis, Dagoberto Castellanos Nieves:
An ontology-based intelligent system for recruitment. Expert Syst. Appl. 31(2): 248-263 (2006)
[j6]
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Teddy G. Miranda-Mena, Sandra L. Benítez U., José Luis Ochoa, Rodrigo Martínez-Béjar, Jesualdo Tomás Fernández-Breis, Juan Salinas:
A knowledge-based approach to assign breast cancer treatments in oncology units. Expert Syst. Appl. 31(3): 451-457 (2006)
[c10]
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Rafael Valencia-García, Dagoberto Castellanos Nieves, Jesualdo Tomás Fernández-Breis, Pedro José Vivancos Vicente:
A Methodology for Extracting Ontological Knowledge from Spanish Documents. CICLing 2006: 71-80
[c9]
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Jesualdo Tomás Fernández-Breis, Pedro José Vivancos Vicente, Marcos Menárguez Tortosa, David Moner, José Alberto Maldonado, Rafael Valencia-García, Teddy G. Miranda-Mena:
Using semantic technologies to promote interoperability between electronic healthcare records' information models. EMBC 2006: 2614-2617
[c8]
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David Moner, José Alberto Maldonado, Diego Boscá, Jesualdo Tomás Fernández-Breis, Carlos Angulo, Pere Crespo, Pedro José Vivancos Vicente, Montserrat Robles:
Archetype-Based Semantic Integration and Standardization of Clinical Data. EMBC 2006: 5141-5144
[c7]
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Pedro José Vivancos Vicente, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar, Rafael Valencia-García:
Visual Knowledge Annotation and Management by Using Qualitative Spatial Information. PKAW 2006: 1-12
[c6]
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Jesualdo Tomás Fernández-Breis, Marcos Menárguez Tortosa, David Moner, Rafael Valencia-García, José Alberto Maldonado, Pedro José Vivancos Vicente, Teddy G. Miranda-Mena, Rodrigo Martínez-Béjar:
An Ontological Infrastructure for the Semantic Integration of Clinical Archetypes. PKAW 2006: 156-167
2005
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Ghassan Beydoun, Achim G. Hoffmann, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar, Rafael Valencia-García, Aybüke Aurum:
Cooperative Modelling Evaluated. Int. J. Cooperative Inf. Syst. 14(1): 45-71 (2005)
2004
[j4]
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Rafael Valencia-García, Juana María Ruiz-Sánchez, Pedro José Vivancos Vicente, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar:
An incremental approach for discovering medical knowledge from texts. Expert Syst. Appl. 26(3): 291-299 (2004)
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Pedro José Vivancos Vicente, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar, Fernando Martín-Rubio:
An Approach for Multirelational Ontology Modelling. PRICAI 2004: 997-998
2003
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Juana María Ruiz-Sánchez, Rafael Valencia-García, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar, Paul Compton:
An approach for incremental knowledge acquisition from text. Expert Syst. Appl. 25(1): 77-86 (2003)
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Francisco Jesús Torralba-Rodríguez, Jesualdo Tomás Fernández-Breis, Rafael Valencia-García, Juana María Ruiz-Sánchez, Rodrigo Martínez-Béjar, Juan Antonio Gómez-Rubí:
An ontological framework for representing and exploiting medical knowledge. Expert Syst. Appl. 25(2): 211-230 (2003)
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Rafael Valencia-García, Dagoberto Castellanos Nieves, Pedro José Vivancos Vicente, Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar, Francisco García-Sánchez:
An Approach for Ontology Building from Text Supported by NLP Techniques. CAEPIA 2003: 126-135
2002
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Jesualdo Tomás Fernández-Breis, Rodrigo Martínez-Béjar:
A cooperative framework for integrating ontologies. Int. J. Hum. Comput. Stud. 56(6): 665-720 (2002)
2001
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Rodrigo Martínez-Béjar, Francisca Ibáñez-Cruz, Paul Compton, Jesualdo Tomás Fernández-Breis, Manuel De las Heras-González:
Integrating Ripple Down Rules with Ontologies in an Oncology Domain. AIME 2001: 324-327
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Jesualdo Tomás Fernández-Breis, Rafael Valencia-García, Rodrigo Martínez-Béjar, Pascual Cantos-Gómez:
A Context-Driven Approach for Knowledge Acquisition: Application to a Leukaemia Domain. CONTEXT 2001: 445-448
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Jesualdo Tomás Fernández-Breis, Dagoberto Castellanos Nieves, Rafael Valencia-García, Pedro José Vivancos Vicente, Rodrigo Martínez-Béjar, Manuel De las Heras-González:
Towards scott domains-based topological ontology models. FOIS 2001: 127-138

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