title: Virtual cell imaging: A review on simulation methods employed in image cytometry.
abstract: The simulations of cells and microscope images thereof have been used to facilitate the development, selection, and validation of image analysis algorithms employed in cytometry as well as for modeling and understanding cell structure and dynamics beyond what is visible in the eyepiece. The simulation approaches vary from simple parametric models of specific cell components-especially shapes of cells and cell nuclei-to learning-based synthesis and multi-stage simulation models for complex scenes that simultaneously visualize multiple object types and incorporate various properties of the imaged objects and laws of image formation. This review covers advances in artificial digital cell generation at scales ranging from particles up to tissue synthesis and microscope image simulation methods, provides examples of the use of simulated images for various purposes ranging from subcellular object detection to cell tracking, and discusses how such simulators have been validated. Finally, the future possibilities and limitations of simulation-based validation are considered. © 2016 International Society for Advancement of Cytometry.
authors.affiliation: Centre for Biomedical Image Analysis, Faculty of Informatics, Masaryk University, Brno, Czech Republic.
authors.forename: Vladimír
authors.initials: V
authors.lastname: Ulman
authors.affiliation: Centre for Biomedical Image Analysis, Faculty of Informatics, Masaryk University, Brno, Czech Republic.
authors.forename: David
authors.initials: D
authors.lastname: Svoboda
authors.affiliation: Institute of Biosciences and Medical Technology - BioMediTech, University of Tampere, Tampere, Finland.
authors.forename: Matti
authors.initials: M
authors.lastname: Nykter
authors.affiliation: Centre for Biomedical Image Analysis, Faculty of Informatics, Masaryk University, Brno, Czech Republic.
authors.forename: Michal
authors.initials: M
authors.lastname: Kozubek
authors.affiliation: Institute of Biosciences and Medical Technology - BioMediTech, University of Tampere, Tampere, Finland.|Pori Campus, Tampere University of Technology, Pori, Finland.
authors.forename: Pekka
authors.initials: P
authors.lastname: Ruusuvuori
mesh_terms: D000465:Algorithms; D001185:Artificial Intelligence; D006801:Humans; D019044:Image Cytometry / Q000379:methods*; D007090:Image Interpretation, Computer-Assisted / Q000379:methods; D010363:Pattern Recognition, Automated / Q000379:methods
keywords: cell imaging; cell model; digital cell; digital phantom; ground truth; image cytometry; simulation; validation; virtual imaging