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The gene regulation knowledge commons : the action area of GREEKC

Martin Kuiper, Joseph Bonello, Jesualdo T. Fernández-Breis, Philipp Bucher, Matthias E. Futschik, Pascale Gaudet, Ivan V. Kulakovskiy, Luana Licata, Colin Logie, Ruth C. Lovering, et al.
(2022) BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS. 1865(1).
Author
Organization
Abstract
As computational modeling becomes more essential to analyze and understand biological regulatory mechanisms, governance of the many databases and knowledge bases that support this domain is crucial to guarantee reliability and interoperability of resources. To address this, the COST Action Gene Regulation Ensemble Effort for the Knowledge Commons (GREEKC, CA15205, www.greekc.org) organized nine workshops in a four-year period, starting September 2016. The workshops brought together a wide range of experts from all over the world working on various steps in the knowledge management process that focuses on understanding gene regulatory mechanisms. The discussions between ontologists, curators, text miners, biologists, bioinformaticians, philosophers and computational scientists spawned a host of activities aimed to standardize and update existing knowledge management workflows and involve end-users in the process of designing the Gene Regulation Knowledge Commons (GRKC). Here the GREEKC consortium describes its main achievements in improving this GRKC.
Keywords
Biocuration, Computational biology, Knowledge Commons, Ontologies, Text mining, Web services, BINDING SITES, DNA, ONTOLOGY, PROTEINS, MOTIF

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MLA
Kuiper, Martin, et al. “The Gene Regulation Knowledge Commons : The Action Area of GREEKC.” BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS, vol. 1865, no. 1, 2022, doi:10.1016/j.bbagrm.2021.194768.
APA
Kuiper, M., Bonello, J., Fernández-Breis, J. T., Bucher, P., Futschik, M. E., Gaudet, P., … on behalf of the GRECO consortium, [ missing ]. (2022). The gene regulation knowledge commons : the action area of GREEKC. BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS, 1865(1). https://doi.org/10.1016/j.bbagrm.2021.194768
Chicago author-date
Kuiper, Martin, Joseph Bonello, Jesualdo T. Fernández-Breis, Philipp Bucher, Matthias E. Futschik, Pascale Gaudet, Ivan V. Kulakovskiy, et al. 2022. “The Gene Regulation Knowledge Commons : The Action Area of GREEKC.” BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 1865 (1). https://doi.org/10.1016/j.bbagrm.2021.194768.
Chicago author-date (all authors)
Kuiper, Martin, Joseph Bonello, Jesualdo T. Fernández-Breis, Philipp Bucher, Matthias E. Futschik, Pascale Gaudet, Ivan V. Kulakovskiy, Luana Licata, Colin Logie, Ruth C. Lovering, Vsevolod J. Makeev, Sandra Orchard, Simona Panni, Livia Perfetto, David Sant, Stefan Schulz, Steven Vercruysse, Daniel R. Zerbino, Astrid Lægreid, Klaas Vandepoele, and [ missing ] on behalf of the GRECO consortium. 2022. “The Gene Regulation Knowledge Commons : The Action Area of GREEKC.” BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 1865 (1). doi:10.1016/j.bbagrm.2021.194768.
Vancouver
1.
Kuiper M, Bonello J, Fernández-Breis JT, Bucher P, Futschik ME, Gaudet P, et al. The gene regulation knowledge commons : the action area of GREEKC. BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS. 2022;1865(1).
IEEE
[1]
M. Kuiper et al., “The gene regulation knowledge commons : the action area of GREEKC,” BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS, vol. 1865, no. 1, 2022.
@article{8734112,
  abstract     = {{As computational modeling becomes more essential to analyze and understand biological regulatory mechanisms, governance of the many databases and knowledge bases that support this domain is crucial to guarantee reliability and interoperability of resources. To address this, the COST Action Gene Regulation Ensemble Effort for the Knowledge Commons (GREEKC, CA15205, www.greekc.org) organized nine workshops in a four-year period, starting September 2016. The workshops brought together a wide range of experts from all over the world working on various steps in the knowledge management process that focuses on understanding gene regulatory mechanisms. The discussions between ontologists, curators, text miners, biologists, bioinformaticians, philosophers and computational scientists spawned a host of activities aimed to standardize and update existing knowledge management workflows and involve end-users in the process of designing the Gene Regulation Knowledge Commons (GRKC). Here the GREEKC consortium describes its main achievements in improving this GRKC.}},
  articleno    = {{194768}},
  author       = {{Kuiper, Martin and Bonello, Joseph and Fernández-Breis, Jesualdo T. and Bucher, Philipp and Futschik, Matthias E. and Gaudet, Pascale and Kulakovskiy, Ivan V. and Licata, Luana and Logie, Colin and Lovering, Ruth C. and Makeev, Vsevolod J. and Orchard, Sandra and Panni, Simona and Perfetto, Livia and Sant, David and Schulz, Stefan and Vercruysse, Steven and Zerbino, Daniel R. and Lægreid, Astrid and Vandepoele, Klaas and on behalf of the GRECO consortium, [ missing ]}},
  issn         = {{1874-9399}},
  journal      = {{BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS}},
  keywords     = {{Biocuration,Computational biology,Knowledge Commons,Ontologies,Text mining,Web services,BINDING SITES,DNA,ONTOLOGY,PROTEINS,MOTIF}},
  language     = {{eng}},
  number       = {{1}},
  pages        = {{9}},
  title        = {{The gene regulation knowledge commons : the action area of GREEKC}},
  url          = {{http://doi.org/10.1016/j.bbagrm.2021.194768}},
  volume       = {{1865}},
  year         = {{2022}},
}
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