Leukocyte tracking database, a collection of immune cell tracks from intravital 2-photon microscopy videos

Pizzagalli, Diego Ulisse; Farsakoglu, Yagmur; Palomino-Segura, Miguel; Palladino, Elisa; Sintes, Jordi; Marangoni, Francesco; Mempel, Thorsten R.; Koh, Wan Hon; Murooka, Thomas T.; Thelen, Flavian; Stein, Jens V.; Pozzi, Giuseppe; Marcus Thelen; Krause, Rolf; Gonzalez, Santiago Fernandez

doi:10.1038/sdata.2018.129

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Journal article

Leukocyte tracking database, a collection of immune cell tracks from intravital 2-photon microscopy videos

Pizzagalli, Diego Ulisse Institute for Research in Biomedicine (IRB), Faculty of Biomedical Sciences, Università della Svizzera italiana, Switzerland - Istituto di scienza computazionale (ICS), Facoltà di scienze informatiche, Università della Svizzera italiana, Svizzera
Farsakoglu, Yagmur Institute for Research in Biomedicine (IRB), Faculty of Biomedical Sciences, Università della Svizzera italiana, Switzerland
Palomino-Segura, Miguel Institute for Research in Biomedicine (IRB), Faculty of Biomedical Sciences, Università della Svizzera italiana, Switzerland
Palladino, Elisa Institute for Research in Biomedicine (IRB), Faculty of Biomedical Sciences, Università della Svizzera italiana, Switzerland
Sintes, Jordi IMIM Hospital del Mar Medical Research Institute. Dr. Aiguader, 88, 08003 Barcelona, Spain
Marangoni, Francesco Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital. CNY 149-8 149 13th Street, Charlestown, MA 02129, USA
Mempel, Thorsten R. Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital. CNY 149-8 149 13th Street, Charlestown, MA 02129, USA
Koh, Wan Hon Department of Immunology, University of Manitoba. 471 Apotex Centre 750, McDermot Avenue, Winnipeg, MB R3E 0T5, Canada
Murooka, Thomas T. Department of Immunology, University of Manitoba. 471 Apotex Centre 750, McDermot Avenue, Winnipeg, MB R3E 0T5, Canada
Thelen, Flavian Theodor Kocher Institute (TKI), University of Bern. Freiestrasse 1, 3012 Bern, Switzerland
Stein, Jens V. Theodor Kocher Institute (TKI), University of Bern. Freiestrasse 1, 3012 Bern, Switzerland
Pozzi, Giuseppe Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano. P.za L da Vinci 32, I-20133 Milano, Italy
Marcus Thelen Institute for Research in Biomedicine (IRB), Faculty of Biomedical Sciences, Università della Svizzera italiana, Switzerland
Krause, Rolf Istituto di scienza computazionale (ICS), Facoltà di scienze informatiche, Università della Svizzera italiana, Svizzera
Gonzalez, Santiago Fernandez Institute for Research in Biomedicine (IRB), Faculty of Biomedical Sciences, Università della Svizzera italiana, Switzerland

17.07.2018

Published in:

Scientific data. - 2018, vol. 5, p. 180129

English Recent advances in intravital video microscopy have allowed the visualization of leukocyte behavior in vivo, revealing unprecedented spatiotemporal dynamics of immune cell interaction. However, state-of-the-art software and methods for automatically measuring cell migration exhibit limitations in tracking the position of leukocytes over time. Challenges arise both from the complex migration patterns of these cells and from the experimental artifacts introduced during image acquisition. Additionally, the development of novel tracking tools is hampered by the lack of a sound ground truth for algorithm validation and benchmarking. Therefore, the objective of this work was to create a database, namely LTDB, with a significant number of manually tracked leukocytes. Broad experimental conditions, sites of imaging, types of immune cells and challenging case studies were included to foster the development of robust computer vision techniques for imaging-based immunological research. Lastly, LTDB represents a step towards the unravelling of biological mechanisms by video data mining in systems biology.

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