Annika Jacobsen

According to our database, Annika Jacobsen authored at least 22 papers between 2015 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

The use of foundational ontologies in biomedical research.

César Henrique Bernabé, Núria Queralt-Rosinach, Vítor E. Silva Souza, Luiz Olavo Bonino da Silva Santos, Barend Mons, Annika Jacobsen, Marco Roos

J. Biomed. Semant., December, 2023

A Resource for Guiding Data Stewards to Make European Rare Disease Patient Registries FAIR.

Philip van Damme, Pablo Alarcón Moreno, César Henrique Bernabé, Alberto Cámara Ballesteros, Clémence M. A. Le Cornec, Bruna dos Santos Vieira, K. Joeri van der Velde, Shuxin Zhang, Claudio Carta, Ronald Cornet, Peter A. C. 't Hoen, Annika Jacobsen, Morris A. Swertz, Marco Roos, Nirupama Benis

Data Sci. J., January, 2023

Surveyed common data access policies preferences amongst European Reference Networks.

Alberto Cámara Ballesteros, Nirupama Benis, César Henrique Bernabé, Inés de Oliveira Coelho, Clémence M. A. Le Cornec, Aylin Demir, Bruna dos Santos Vieira, Jose Antonio Ramírez, K. Joeri van der Velde, Shuxin Zhang, Ronald Cornet, Annika Jacobsen, Marco Roos, Franz Schaefer, Morris A. Swertz, Mark D. Wilkinson

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

A Method to Facilitate the Identification of FAIRification Objectives.

César Henrique Bernabé, Annika Jacobsen, Luiz Olavo Bonino da Silva Santos, Marco Roos

Proceedings of the International Conference on Biomedical Ontologies 2023 together with the Workshop on Ontologies for Infectious and Immune-Mediated Disease Data Science (OIIDDS 2023) and the FAIR Ontology Harmonization and TRUST Data Interoperability Workshop (FOHTI 2023), Brasília, Brazil, August 28, 2023

A goal-oriented method for FAIRification planning.

César Henrique Bernabé, Tiago Prince Sales, Erik Schultes, Niek van Ulzen, Annika Jacobsen, Luiz Olavo Bonino da Silva Santos, Barend Mons, Marco Roos

Proceedings of the Companion Proceedings of the 42nd International Conference on Conceptual Modeling: ER Forum, 2023

2022

Applying the FAIR principles to data in a hospital: challenges and opportunities in a pandemic.

Núria Queralt-Rosinach, Rajaram Kaliyaperumal, César Henrique Bernabé, Qinqin Long, Simone A. Joosten, Henk Jan van der Wijk, Erik Flikkenschild, Kees Burger, Annika Jacobsen, Barend Mons, Marco Roos

J. Biomed. Semant., 2022

Semantic modelling of common data elements for rare disease registries, and a prototype workflow for their deployment over registry data.

Rajaram Kaliyaperumal, Mark D. Wilkinson, Pablo Alarcón Moreno, Nirupama Benis, Ronald Cornet, Bruna dos Santos Vieira, Michel Dumontier, César Henrique Bernabé, Annika Jacobsen, Clémence M. A. Le Cornec, Mario Prieto Godoy, Núria Queralt-Rosinach, Leo J. Schultze Kool, Morris A. Swertz, Philip van Damme, K. Joeri van der Velde, Nawel Lalout, Shuxin Zhang, Marco Roos

J. Biomed. Semant., 2022

The Use of Foundational Ontologies in Bioinformatics.

César Henrique Bernabé, Núria Queralt-Rosinach, Vítor E. Silva Souza, Luiz Olavo Bonino da Silva Santos, Annika Jacobsen, Barend Mons, Marco Roos

Proceedings of the 13th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, 2022

2021

De-novo FAIRification via an Electronic Data Capture system by automated transformation of filled electronic Case Report Forms into machine-readable data.

Martijn G. Kersloot, Annika Jacobsen, Karlijn H. J. Groenen, Bruna dos Santos Vieira, Rajaram Kaliyaperumal, Ameen Abu-Hanna, Ronald Cornet, Peter A. C. 't Hoen, Marco Roos, Leo J. Schultze Kool, Derk L. Arts

J. Biomed. Informatics, 2021

2020

FAIR Convergence Matrix: Optimizing the Reuse of Existing FAIR-Related Resources.

Hana Pergl Sustkova, Kristina Maria Hettne, Peter Wittenburg, Annika Jacobsen, Tobias Kuhn, Robert Pergl, Jan Slifka, Peter McQuilton, Barbara Magagna, Susanna-Assunta Sansone, Markus Stocker, Melanie Imming, Larry Lannom, Mark A. Musen, Erik Schultes

Data Intell., 2020

The FAIR Principles: First Generation Implementation Choices and Challenges.

Barend Mons, Erik Schultes, Fenghong Liu, Annika Jacobsen

Data Intell., 2020

A Generic Workflow for the Data FAIRification Process.

Annika Jacobsen, Rajaram Kaliyaperumal, Luiz Olavo Bonino da Silva Santos, Barend Mons, Erik Schultes, Marco Roos, Mark Thompson

Data Intell., 2020

FAIR Principles: Interpretations and Implementation Considerations.

Annika Jacobsen, Ricardo de Miranda Azevedo, Nick S. Juty, Dominique Batista, Simon J. Coles, Ronald Cornet, Mélanie Courtot, Mercè Crosas, Michel Dumontier, Chris T. A. Evelo, Carole A. Goble, Giancarlo Guizzardi, Karsten Kryger Hansen, Ali Hasnain, Kristina M. Hettne, Jaap Heringa, Rob W. W. Hooft, Melanie Imming, Keith G. Jeffery, Rajaram Kaliyaperumal, Martijn G. Kersloot, Christine R. Kirkpatrick, Tobias Kuhn, Ignasi Labastida, Barbara Magagna, Peter McQuilton, Natalie Meyers, Annalisa Montesanti, Mirjam van Reisen, Philippe Rocca-Serra, Robert Pergl, Susanna-Assunta Sansone, Luiz Olavo Bonino da Silva Santos, Juliane Schneider, George O. Strawn, Mark Thompson, Andra Waagmeester, Tobias Weigel, Mark D. Wilkinson, Egon L. Willighagen, Peter Wittenburg, Marco Roos, Barend Mons, Erik Schultes

Data Intell., 2020

A framework for exhaustive modelling of genetic interaction patterns using Petri nets.

Annika Jacobsen, Olga Ivanova, Saman Amini, Jaap Heringa, Patrick Kemmeren, K. Anton Feenstra

Bioinform., 2020

Applying the FAIR Data Principles to the Registry of Vascular Anomalies (VASCA).

Bruna dos Santos Vieira, Karlijn H. J. Groenen, Peter A. C. 't Hoen, Annika Jacobsen, Marco Roos, Rajaram Kaliyaperumal, Martijn G. Kersloot, Ronald Cornet, Leo J. Schultze Kool

Proceedings of the dHealth 2020 - Biomedical Informatics for Health and Care, 2020

2019

The ability of transcription factors to differentially regulate gene expression is a crucial component of the mechanism underlying inversion, a frequently observed genetic interaction pattern.

Saman Amini, Annika Jacobsen, Olga Ivanova, Philip Lijnzaad, Jaap Heringa, Frank C. P. Holstege, K. Anton Feenstra, Patrick Kemmeren

PLoS Comput. Biol., 2019

The FAIR Funder pilot programme to make it easy for funders to require and for grantees to produce FAIR Data.

Peter Wittenburg, Hana Pergl Sustkova, Annalisa Montesanti, Margreet Bloemers, S. H. de Waard, Mark A. Musen, John Graybeal, Kristina M. Hettne, Annika Jacobsen, Robert Pergl, Rob W. W. Hooft, Christine Staiger, Celia W. G. van Gelder, Sebastiaan L. Knijnenburg, A. C. van Arkel, Bert Meerman, Mark D. Wilkinson, Susanna-Assunta Sansone, Philippe Rocca-Serra, Peter McQuilton, Alejandra N. González-Beltrán, G. J. C. Aben, Patrícia Henning, Maria Simone de Menezes Alencar, C. Ribeiro, C. R. L. Silva, Luís Fernando Sayão, Luana Sales, Viviane Veiga, Jefferson Lima, Simone Dib, Paula Xavier dos Santos, R. Murtinho, Jakob Tendel, B. F. Schaap, P. M. Brouwer, A. K. Gavai, Yamine Bouzembrak, Hans J. P. Marvin, Albert Mons, Tobias Kuhn, Alessa A. Gambardella, Ricardo de Miranda Azevedo, Vesa Muhonen, Mira van der Naald, N. W. Smit, M. J. Buys, Taco F. de Bruin, Fieke Schoots, H. J. E. Goodson, Henry S. Rzepa, Keith G. Jeffery, Hugh P. Shanahan, M. Axton, Veniamin Tkachenko, Anne Deslattes Mays, Natalie Meyers, Michael Conlon, Laurel L. Haak, Erik A. Schultes

CoRR, 2019

2018

Wikidata as an intuitive resource towards semantic data modeling in data FAIRification.

Annika Jacobsen, Andra Waagmeester, Rajaram Kaliyaperumal, Gregory S. Stupp, Lynn M. Schriml, Mark Thompson, Andrew I. Su, Marco Roos

Proceedings of the 11th International Conference Semantic Web Applications and Tools for Life Sciences, 2018

2017

Overview of a Suite of Tools and Training Material for Implementing FAIR Data Principles.

Mark Thompson, Luiz Olavo Bonino da Silva Santos, Kees Burger, Rajaram Kaliyaperumal, Erik A. Schultes, Annika Jacobsen, Claudio Carta, Richard Finkers, David van Enckevort, Mascha Jansen, Barend Mons, Marco Roos

Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4LS 2017), 2017

The FAIRification of Data and the Potential of FAIR Resources Demonstrated, in Practice, at the Rome Bring Your Own Data Workshop.

Claudio Carta, Marco Roos, Annika Jacobsen, Rajaram Kaliyaperumal, Mark Thompson, Mark D. Wilkinson, Ronald Cornet, Andra Waagmeester, David van Enckevort, Mascha Jansen, Luana Licata, Allegra Via, Domenica Taruscio

Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4LS 2017), 2017

2016

BioASF: a framework for automatically generating executable pathway models specified in BioPAX.

Reza Haydarlou, Annika Jacobsen, Nicola Bonzanni, K. Anton Feenstra, Sanne Abeln, Jaap Heringa

Bioinform., 2016

2015

Highlights from the tenth ISCB Student Council Symposium 2014.

Farzana Rahman, Katie Wilkins, Annika Jacobsen, Alexander Junge, Esmeralda Vicedo, Dan F. DeBlasio, Anupama Jigisha, Tomás Di Domenico

BMC Bioinform., 2015