Daniel Faria
PAST
| Acronym | Title | Funding Entity | Start Date | End Date |
|---|---|---|---|---|
| KATY | Knowledge At the Tip of Your fingers: Clinical Knowledge for Humanity | EU H2020 | 01/01/2021 | 30/06/2025 |
Emilia Daghir-Wojtkowiak, Javier Alfaro, Michele Mastromattei, Aleksander Palkowski, Mark Stares, Ana Roca-Umbert, Andraz Krajnc, Riccardo Leoni, Anne Boland, Aria Nourbaksh, Ashwin Kallor, Camille Ducki, Davide Venditti, Carla Montesano, Chiara Cipriani, Daniel Faria, Delphine Pflieger, Elisa Zago, Etienne Bardet, Filipa Serrano, Florian Jeanneret, Damien Alouges, Liangwei Yin, Elodine Coquelet, Apolline Bacquet, Francesco Bonchi, Francesco Maiorino, Francesco Torino, Georges Bedran, Jean-Alexandre Long, Laura Balbi, Laurent Guyon, Liana Bevilacqua, Manuel Fiorelli, Marie-Catherine Wagner, Mario Reyes, Mario Roselli, Marta Contreiras Silva, Michal Waleron, Nikolas Dovrolis, Odile Filhol-Cochet, In Hwa Um, Georg Wolflein, Patrícia Eugénio, Pauline Bazelle, Pavlos Golnas, Peter Thorpe, Pierluigi Bove, Piyush Borole, Roberta Bernardini, Rohit Kumar, Rosella Cicconi, Saskia Kaltenbrunner, Saverio Gravina, Simona Brezar, Stefan Symeonides, Steven McGinn, Susana Nunes, Ted Hupp, Yuri Gordienko, Dimitrios Varvaras, Sergii Stirenko, Luciano Xumerle, Stefania Mariani, Assilah Bouzit, Stéphane Gazut, Heiko Poth, Kyriakos Souliotis, Hector Katifelis, Elena Verzoni, Giuseppe Procopio, Sarah Schoch, Francisco Lupiáñez-Villanueva, Sandra Türk, Katarzyna Barud, Dimitri Koroliouk, Juan Caubet, Yamir Moreno, Jean-Luc Descotes, Christina Golna, Valentina Guadalupi, Paolo Garagnani, Maria Gazouli, Jean-François Deleuze, Frans Folkvord, Nikolaus Forgó, David J. Harrison, Håkan Axelson, Armando Stellato, Maurizio Mattei, Ajitha Rajan, Alexander Laird, Christophe Battail, Catia Pesquita, Fabio Massimo Zanzotto. Leveraging knowledge for explainable AI in personalized cancer treatment: challenges and future directions. Frontiers in Digital Health, 7, Frontiers Media SA, 2025 [Biblius]
Daniel Faria, Emanuel Santos, Booma Sowkarthiga Balasubramani, Marta C. Silva, Francisco M. Couto, Catia Pesquita. AgreementMakerLight. Semantic Web, 1-13, IOS Press, 2023 [Biblius]
Eugénio, Patrícia Raquel dos Anjos, Pesquita, Cátia Luísa Santana Calisto, Faria, Daniel Pedro de Jesus. The ImmunoPeptidomics Ontology : design and evaluation. Dissertação de Mestrado, 2023 [Biblius]
Cyril Pommier, Frederik Coppens, Hanna Ćwiek-Kupczyńska, Daniel Faria, Sebastian Beier, Célia Miguel, Célia Michotey, Flora D’Anna, Stuart Owen, Kristina Gruden. Plant Science Data Integration, from Building Community Standards to Defining a Consistent Data Lifecycle, In Towards Responsible Plant Data Linkage: Data Challenges for Agricultural Research and Development, pages 149 - 160. Springer International Publishing, 2022 [Biblius]
Ana Rita Pereira Guerreiro, Cátia Luisa Santana Calisto Pesquita, Daniel Pedro de Jesus Faria. Helping scientists integrate and interact with biomedical data. Dissertação de Mestrado, 2021 [Biblius]
Ana Teresa Freitas, Conceição Calhau, Gonçalo Antunes, Beatriz Araújo, Matilde Bandeira, Sofia Barreira, Filipa Bazenga, Sandra Braz, Daniel Caldeira, Susana Constantino Rosa Santos, Ana Faria, Daniel Faria, Marta Fraga, Beatriz Nogueira-Garcia, Lúcia Gonçalves, Pavlo Kovalchuk, Luísa Lacerda, Hugo Lopes, Daniel Luís, Fábio Medeiros, Ana M. P. Melo, José Melo-Cristino, Ana Miranda, Clara Pereira, Ana Teresa Pinto, João Pinto, Helena Proença, Angélica Ramos, João P. R. Rato, Filipe Rocha, Júlio César Rocha, André Moreira-Rosário, Helena Vazão, Yuliya Volovetska, João-Tiago Guimarães, Fausto J. Pinto. Vitamin D-related polymorphisms and vitamin D levels as risk biomarkers of COVID-19 disease severity. Scientific Reports, 11(1), Springer Science and Business Media LLC, 2021 [Biblius]
Lima, Beatriz Fonseca de, Pesquita, Cátia, Faria, Daniel Pedro de Jesus. Breaking rules: taking Complex Ontology Alignment beyond rulebased approaches. Dissertação de Mestrado, 2021 [Biblius]
Ana Guerreiro, Catia Pesquita, Daniel Faria. VOWLMap: Graph-based Ontology Alignment Visualization and Editing. In VOILA! 2021 Visualization and Interaction for Ontologies and Linked Data, 2021 [Biblius]
Beatriz Lima, Daniel Faria, Catia Pesquita. Challenges of evaluating complex alignments. In Ontology Matching Workshop co-located wth ISWC, 2021 [Biblius]
Cirenia Arias-Baldrich, Marta Contreiras Silva, Filippo Bergeretti, Inês Chaves, Célia Miguel, Nelson J M Saibo, Daniel Sobral, Daniel Faria, Pedro M Barros. CorkOakDB—The Cork Oak Genome Database Portal. Database, 2020, Oxford University Press (OUP), 2020 [Biblius]
Evangelia A. Papoutsoglou, Daniel Faria, Daniel Arend, Elizabeth Arnaud, Ioannis N. Athanasiadis, Inês Chaves, Frederik Coppens, Guillaume Cornut, Bruno V. Costa, Hanna ?wiek-Kupczy?ska, Bert Droesbeke, Richard Finkers, Kristina Gruden, Astrid Junker, Graham J. King, Pawe? Krajewski, Matthias Lange, Marie-Angélique Laporte, Célia Michotey, Markus Oppermann, Richard Ostler, Hendrik Poorter, Ricardo Ram??rez-Gonzalez, Živa Ramšak, Jochen C. Reif, Philippe Rocca-Serra, Susanna-Assunta Sansone, Uwe Scholz, François Tardieu, Cristobal Uauy, Björn Usadel, Richard G.F. Visser, Stephan Weise, Paul J. Kersey, Célia M. Miguel, Anne-Françoise Adam-Blondon, Cyril Pommier. Enabling reusability of plant phenomic datasets with MIAPPE 1.1. New Phytologist, (227), Wiley, 2020 [Biblius]
Lu Zhou, Elodie Thiéblin, Michelle Cheatham, Daniel Faria, Catia Pesquita, Cassia Trojahn, Ond?ej Zamazal. Towards evaluating complex ontology alignments. The Knowledge Engineering Review, 35, Cambridge University Press (CUP), 2020 [Biblius]
Daniel Faria, Alfio Ferrara, Ernesto Jiménez-ruiz, Stefano Montanelli, Catia Pesquita. Crowd-assessing quality in uncertain data linking datasets. The Knowledge Engineering Review, 35, Cambridge University Press (CUP), 2020 [Biblius]
Huanyu Li, Zlatan Dragisic, Daniel Faria, Valentina Ivanova, Ernesto Jiménez-Ruiz, Patrick Lambrix, Catia Pesquita. User validation in ontology alignment: functional assessment and impact. The Knowledge Engineering Review, 34, Cambridge University Press (CUP), 2019 [Biblius]
Daniel Faria, Catia Pesquita, Isabela Mott, Catarina Martins, Francisco M. Couto, Isabel F. Cruz. Tackling the challenges of matching biomedical ontologies. Journal of Biomedical Semantics, 9(1), Springer Nature, 2018 [Biblius]
Catia Pesquita, Daniel Faria, Alsayed Algergawy, Michelle Cheatham, Alfio Ferrara, Irina Fundulaki, Ian Harrow, Sven Hertling, Ernesto Jimenez-Ruiz, Naouel Karam, Abderrahman Khiat, Patrick Lambrix, Huanyu Li, Stefano Montanelli, Heiko Paulheim, Tzanina Saveta, Daniela Schmidt, Pavel. Results of the Ontology Alignment Evaluation Initiative 2018. In 13th International Workshop on Ontology Matching, 2018 [Biblius]
C Pesquita, Daniel Faria, Manel Achichi, Michelle Cheatham, Zlatan Dragisic, Jérôme Euzenat, Alfio Ferrara, Giorgos Flouris, Irini Fundulaki, Ian Harrow, Valentina Ivanova, Ernesto Jiménez-Ruiz, Kristian Kolthoff, Elena Kuss, Patrick Lambrix, Henrik Leopold, Huanyu Li, Christian M. Results of the ontology alignment evaluation initiative 2017. In 12th International Workshop on Ontology Matching co-located with the 16th International Semantic Web Conference, 2017 [Biblius]
Viana, Samuel Dias Rosa, Pesquita, Idália Maria Pereira, Faria, Daniel Pedro de Jesus. Optmizing 16S sequencing analysis pipelines. Dissertação de Mestrado, 2016 [Biblius]
Zlatan Dragisic, Valentina Ivanova, Patrick Lambrix, Daniel Faria, Ernesto Jiménez-Ruiz, Catia Pesquita. User Validation in Ontology Alignment. In International Semantic Web Conference (Lecture Notes in Computer Science,The Semantic Web – ISWC 2016), pages 200-217. Springer International Publishing, 2016 [Biblius]
Emanuel Santos, Daniel Faria, Cátia Pesquita, Francisco Couto. Ontology alignment repair through modularization and confidence-based heuristics. PLOS ONE, 10(12):1-19, 2015 [Biblius]
Daniel Faria, Ernesto Jiménez-Ruiz, Catia Pesquita, Emanuel Santos, Francisco M. Couto. Towards Annotating Potential Incoherences in BioPortal Mappings. In The Semantic Web – ISWC 2014,Lecture Notes in Computer Science, pages 17-32. Springer International Publishing, 2014 [Biblius]
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. In The Ninth International Workshop on Ontology Matching (OM-2014), 2014 at ISWC 2014, 2014 [Biblius]
Daniel Faria, Cátia Pesquita, Emanuel Santos, M. Palmonari, I. Cruz, Francisco Couto. The AgreementMakerLight ontology matching system. In On The Move (OTM) Federated International Conference, pages 527-541, 2013 [Biblius]
Cátia Pesquita, Daniel Faria, Emanuel Santos, Francisco Couto. To repair or not to repair: reconciling correctness and coherence in ontology reference alignments. In The Eighth International Workshop on Ontology Matching (OM-2013), 2013 [Biblius]
Cátia Pesquita, Daniel Faria, C. Stroe, Emanuel Santos, I. Cruz, Francisco Couto. What's in a `nym'? synonyms in biomedical ontology matching. In 12th International Semantic Web Conference (ISWC), pages 526-541, 2013 [Biblius]
Daniel Faria, Catia Pesquita, Francisco Couto, André Falcão. GOclasses: molecular function as viewed by proteins. In BioOntologies SIG at ISMB/ECCB - 17th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), 2009 [Biblius]