Community standards for open cell migration data
GigaScience, vol. 9
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.
Authors 25
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Affiliation as printed
Oxford e-Research Centre, Department of Engineering Science, University of Oxford , 7 Keble Road, Oxford OX1 3QG, Oxford,
Oxford e-Research Centre, Department of Engineering Science, University of Oxford, 7 Keble Road, Oxford OX1 3QG, Oxford, UK
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Ghent University · Institute for Globally Distributed Open Research and Education · VIB-UGent Center for Medical Biotechnology
Affiliation as printed
Department of Biomolecular Medicine, Ghent University , A. Baertsoenkaai 3, B-9000, Ghent,
Institute for Globally Distributed Open Research and Education (IGDORE) , Kabupaten Gianyar, Bali 80571,
VIB-UGent Center for Medical Biotechnology , VIB, A. Baertsoenkaai 3, B-9000, Ghent,
Department of Biomolecular Medicine, Ghent University, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
Institute for Globally Distributed Open Research and Education (IGDORE), Kabupaten Gianyar, Bali 80571, Indonesia
VIB-UGent Center for Medical Biotechnology, VIB, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
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Affiliation as printed
Department of Biomolecular Medicine, Ghent University , A. Baertsoenkaai 3, B-9000, Ghent,
Department of Biomolecular Medicine, Ghent University, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
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Radboud University Nijmegen · Radboud Institute for Molecular Life Sciences
Affiliation as printed
Department of Cell Biology, Radboud Institute for Molecular Life Sciences , Geert Grooteplein 28 6525 GA Nijmegen,
Department of Cell Biology, Radboud Institute for Molecular Life Sciences, Geert Grooteplein 28 6525 GA Nijmegen, The Netherlands
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Affiliation as printed
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee , School of Life Sciences, Dow St Dundee DD1 5EH, Scotland,
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee, School of Life Sciences, Dow St Dundee DD1 5EH, Scotland, UK
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Affiliation as printed
German Cancer Research Center, DKFZ Alumni Association , Im Neuenheimer Feld 280, 69120 Heidelberg,
German Cancer Research Center, DKFZ Alumni Association, Im Neuenheimer Feld 280, 69120 Heidelberg, Germany
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The University of Texas MD Anderson Cancer Center · Radboud University Nijmegen · Radboud Institute for Molecular Life Sciences · Cancer Genomics Centre
Affiliation as printed
Cancer Genomics Center , Universiteitsweg 100, 3584 CG Utrecht,
David H. Koch Center for Applied Genitourinary Medicine, UT MD Anderson Cancer Center , 6767 Bertner Ave, Mitchell Basic Science Research Building, 77030 Houston, TX,
Department of Cell Biology, Radboud Institute for Molecular Life Sciences , Geert Grooteplein 28 6525 GA Nijmegen,
Cancer Genomics Center, Universiteitsweg 100, 3584 CG Utrecht, The Netherlands
David H. Koch Center for Applied Genitourinary Medicine, UT MD Anderson Cancer Center, 6767 Bertner Ave, Mitchell Basic Science Research Building, 77030 Houston, TX, USA
Department of Cell Biology, Radboud Institute for Molecular Life Sciences, Geert Grooteplein 28 6525 GA Nijmegen, The Netherlands
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Essen University Hospital · Leibniz Institute for Analytical Sciences - ISAS · University of Duisburg-Essen
Affiliation as printed
Institute for Experimental Immunology and Imaging, University Hospital, University Duisburg-Essen , Universitätsstr. 2, 45141 Essen,
Leibniz Institute for Analytical Sciences, ISAS , Bunsen-Kirchhoff-Straße 11, 44139 Dortmund,
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Northwestern University · The University of Texas Southwestern Medical Center
Affiliation as printed
Department of Biophysics, UT Southwestern Medical Center , 5323 Harry Hines Blvd. Dallas, TX 75390,
Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University , 303 E. Chicago Ave, Chicago, IL 60611,
Department of Biophysics, UT Southwestern Medical Center, 5323 Harry Hines Blvd. Dallas, TX 75390, USA
Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, 303 E. Chicago Ave, Chicago, IL 60611, USA
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Sylvia E. Le Dévédec Aachen Division of Drug Discovery and Safety Leiden Academic Centre for Drug Research
Affiliation as printed
Division of Drug Discovery and Safety, Leiden Academic Centre for Drug Research , Leiden University, PO box 9502 2300 RA Leiden,
Division of Drug Discovery and Safety, Leiden Academic Centre for Drug Research, Leiden University, PO box 9502 2300 RA Leiden, The Netherlands
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University of Dundee · Center for Advanced Studies Research and Development in Sardinia
Affiliation as printed
Center for Advanced Studies, Research, and Development in Sardinia (CRS4), Loc. Piscina Manna, Edificio 1, 09050 Pula (CA) ,
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee , School of Life Sciences, Dow St Dundee DD1 5EH, Scotland,
Center for Advanced Studies, Research, and Development in Sardinia (CRS4), Loc. Piscina Manna, Edificio 1, 09050 Pula (CA) , Italy
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee, School of Life Sciences, Dow St Dundee DD1 5EH, Scotland, UK
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Affiliation as printed
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee , School of Life Sciences, Dow St Dundee DD1 5EH, Scotland,
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee, School of Life Sciences, Dow St Dundee DD1 5EH, Scotland, UK
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Affiliation as printed
IDEA Bio-Medical Ltd , 2 Prof. Bergman St., Rehovot 76705,
IDEA Bio-Medical Ltd, 2 Prof. Bergman St., Rehovot 76705, Israel
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Affiliation as printed
Life Science Core Facilities, Weizmann Institute of Science , P.O. Box 26 Rehovot 76100,
Life Science Core Facilities, Weizmann Institute of Science, P.O. Box 26 Rehovot 76100, Israel
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Affiliation as printed
Oxford e-Research Centre, Department of Engineering Science, University of Oxford , 7 Keble Road, Oxford OX1 3QG, Oxford,
Oxford e-Research Centre, Department of Engineering Science, University of Oxford, 7 Keble Road, Oxford OX1 3QG, Oxford, UK
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The University of Texas Southwestern Medical Center
Affiliation as printed
Lyda Hill Department of Bioinformatics, UT Southwestern Medical Center, 5323 Harry Hines Blvd. Dallas, TX 75390 ,
Lyda Hill Department of Bioinformatics, UT Southwestern Medical Center, 5323 Harry Hines Blvd. Dallas, TX 75390, USA
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Essen University Hospital · University of Duisburg-Essen
Affiliation as printed
Institute for Experimental Immunology and Imaging, University Hospital, University Duisburg-Essen , Universitätsstr. 2, 45141 Essen,
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Affiliation as printed
Department of Biomolecular Medicine, Ghent University , A. Baertsoenkaai 3, B-9000, Ghent,
Department of Biomolecular Medicine, Ghent University, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
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Affiliation as printed
Department of Biosciences and Nutrition, Karolinska Institutet , Neo, SE-141 83 Huddinge,
Department of Biosciences and Nutrition, Karolinska Institutet, Neo, SE-141 83 Huddinge, Sweden
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Affiliation as printed
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee , School of Life Sciences, Dow St Dundee DD1 5EH, Scotland,
Centre for Gene Regulation & Expression & Division of Computational Biology, University of Dundee, School of Life Sciences, Dow St Dundee DD1 5EH, Scotland, UK
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Radboud University Nijmegen · Radboud Institute for Molecular Life Sciences
Affiliation as printed
Department of Cell Biology, Radboud Institute for Molecular Life Sciences , Geert Grooteplein 28 6525 GA Nijmegen,
Department of Cell Biology, Radboud Institute for Molecular Life Sciences, Geert Grooteplein 28 6525 GA Nijmegen, The Netherlands
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Affiliation as printed
Department of Biomolecular Medicine, Ghent University , A. Baertsoenkaai 3, B-9000, Ghent,
Department of Biomolecular Medicine, Ghent University, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
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Ben-Gurion University of the Negev
Affiliation as printed
Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev , P.O.B. 653, 8410501 Beer-Sheva,
Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, P.O.B. 653, 8410501 Beer-Sheva, Israel
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Susanna‐Assunta Sansone corresponding
Affiliation as printed
Oxford e-Research Centre, Department of Engineering Science, University of Oxford , 7 Keble Road, Oxford OX1 3QG, Oxford,
Oxford e-Research Centre, Department of Engineering Science, University of Oxford, 7 Keble Road, Oxford OX1 3QG, Oxford, UK
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Lennart Martens corresponding
Ghent University · VIB-UGent Center for Medical Biotechnology
Affiliation as printed
Department of Biomolecular Medicine, Ghent University , A. Baertsoenkaai 3, B-9000, Ghent,
VIB-UGent Center for Medical Biotechnology , VIB, A. Baertsoenkaai 3, B-9000, Ghent,
Department of Biomolecular Medicine, Ghent University, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
VIB-UGent Center for Medical Biotechnology, VIB, A. Baertsoenkaai 3, B-9000, Ghent, Belgium
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