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Community standards for open cell migration data

Alejandra N. Gonzalez-Beltran, Paola Masuzzo (UGent) , Christophe Ampe (UGent) , Gert-Jan Bakker, Sébastien Besson, Robert H Eibl, Peter Friedl, Matthias Gunzer, Mark Kittisopikul, Sylvia E. Le Dévédec, et al.
(2020) GIGASCIENCE. 9(5).
Author
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Abstract
Cell migration research has become a high-content field. However, the quantitative information encapsulated in these complex and high-dimensional datasets is not fully exploited owing to the diversity of experimental protocols and non-standardized output formats. In addition, typically the datasets are not open for reuse. Making the data open and Findable, Accessible, Interoperable, and Reusable (FAIR) will enable meta-analysis, data integration, and data mining. Standardized data formats and controlled vocabularies are essential for building a suitable infrastructure for that purpose but are not available in the cell migration domain. We here present standardization efforts by the Cell Migration Standardisation Organisation (CMSO), an open community-driven organization to facilitate the development of standards for cell migration data. This work will foster the development of improved algorithms and tools and enable secondary analysis of public datasets, ultimately unlocking new knowledge of the complex biological process of cell migration.
Keywords
cell migration, data standards, metadata, CMSO, MIACME, biotracks, frictionless data package, FAIR data, MINIMUM INFORMATION, IMAGE DATA, FUTURE

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Citation

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MLA
Gonzalez-Beltran, Alejandra N., et al. “Community Standards for Open Cell Migration Data.” GIGASCIENCE, vol. 9, no. 5, 2020, doi:10.1093/gigascience/giaa041.
APA
Gonzalez-Beltran, A. N., Masuzzo, P., Ampe, C., Bakker, G.-J., Besson, S., Eibl, R. H., … Martens, L. (2020). Community standards for open cell migration data. GIGASCIENCE, 9(5). https://doi.org/10.1093/gigascience/giaa041
Chicago author-date
Gonzalez-Beltran, Alejandra N., Paola Masuzzo, Christophe Ampe, Gert-Jan Bakker, Sébastien Besson, Robert H Eibl, Peter Friedl, et al. 2020. “Community Standards for Open Cell Migration Data.” GIGASCIENCE 9 (5). https://doi.org/10.1093/gigascience/giaa041.
Chicago author-date (all authors)
Gonzalez-Beltran, Alejandra N., Paola Masuzzo, Christophe Ampe, Gert-Jan Bakker, Sébastien Besson, Robert H Eibl, Peter Friedl, Matthias Gunzer, Mark Kittisopikul, Sylvia E. Le Dévédec, Simone Leo, Josh Moore, Yael Paran, Jaime Prilusky, Philippe Rocca-Serra, Philippe Roudot, Marc Schuster, Gwendolien Sergeant, Staffan Strömblad, Jason R. Swedlow, Merijn van Erp, Marleen Van Troys, Assaf Zaritsky, Susanna-Assunta Sansone, and Lennart Martens. 2020. “Community Standards for Open Cell Migration Data.” GIGASCIENCE 9 (5). doi:10.1093/gigascience/giaa041.
Vancouver
1.
Gonzalez-Beltran AN, Masuzzo P, Ampe C, Bakker G-J, Besson S, Eibl RH, et al. Community standards for open cell migration data. GIGASCIENCE. 2020;9(5).
IEEE
[1]
A. N. Gonzalez-Beltran et al., “Community standards for open cell migration data,” GIGASCIENCE, vol. 9, no. 5, 2020.
@article{8668348,
  abstract     = {{Cell migration research has become a high-content field. However, the quantitative information encapsulated in these complex and high-dimensional datasets is not fully exploited owing to the diversity of experimental protocols and non-standardized output formats. In addition, typically the datasets are not open for reuse. Making the data open and Findable, Accessible, Interoperable, and Reusable (FAIR) will enable meta-analysis, data integration, and data mining. Standardized data formats and controlled vocabularies are essential for building a suitable infrastructure for that purpose but are not available in the cell migration domain. We here present standardization efforts by the Cell Migration Standardisation Organisation (CMSO), an open community-driven organization to facilitate the development of standards for cell migration data. This work will foster the development of improved algorithms and tools and enable secondary analysis of public datasets, ultimately unlocking new knowledge of the complex biological process of cell migration.}},
  articleno    = {{giaa041}},
  author       = {{Gonzalez-Beltran, Alejandra N. and Masuzzo, Paola and Ampe, Christophe and Bakker, Gert-Jan and Besson, Sébastien and Eibl, Robert H and Friedl, Peter and Gunzer, Matthias and Kittisopikul, Mark and Le Dévédec, Sylvia E. and Leo, Simone and Moore, Josh and Paran, Yael and Prilusky, Jaime and Rocca-Serra, Philippe and Roudot, Philippe and Schuster, Marc and Sergeant, Gwendolien and Strömblad, Staffan and Swedlow, Jason R. and van Erp, Merijn and Van Troys, Marleen and Zaritsky, Assaf and Sansone, Susanna-Assunta and Martens, Lennart}},
  issn         = {{2047-217X}},
  journal      = {{GIGASCIENCE}},
  keywords     = {{cell migration,data standards,metadata,CMSO,MIACME,biotracks,frictionless data package,FAIR data,MINIMUM INFORMATION,IMAGE DATA,FUTURE}},
  language     = {{eng}},
  number       = {{5}},
  pages        = {{11}},
  title        = {{Community standards for open cell migration data}},
  url          = {{http://doi.org/10.1093/gigascience/giaa041}},
  volume       = {{9}},
  year         = {{2020}},
}
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