title: SOFI Simulation Tool: A Software Package for Simulating and Testing Super-Resolution Optical Fluctuation Imaging.
abstract: Super-resolution optical fluctuation imaging (SOFI) allows one to perform sub-diffraction fluorescence microscopy of living cells. By analyzing the acquired image sequence with an advanced correlation method, i.e. a high-order cross-cumulant analysis, super-resolution in all three spatial dimensions can be achieved. Here we introduce a software tool for a simple qualitative comparison of SOFI images under simulated conditions considering parameters of the microscope setup and essential properties of the biological sample. This tool incorporates SOFI and STORM algorithms, displays and describes the SOFI image processing steps in a tutorial-like fashion. Fast testing of various parameters simplifies the parameter optimization prior to experimental work. The performance of the simulation tool is demonstrated by comparing simulated results with experimentally acquired data.
authors: Laboratoire d'Optique Biomédicale, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
authors: Arik
authors: A
authors: Girsault
authors: Laboratoire d'Optique Biomédicale, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.|Department of Radioelectronics, Faculty of Electrical Engineering, Czech Technical University in Prague, Prague, Czech Republic.
authors: Tomas
authors: T
authors: Lukes
authors: Laboratoire d'Optique Biomédicale, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
authors: Azat
authors: A
authors: Sharipov
authors: Laboratoire d'Optique Biomédicale, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
authors: Stefan
authors: S
authors: Geissbuehler
authors: Laboratoire d'Optique Biomédicale, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
authors: Marcel
authors: M
authors: Leutenegger
authors: Department of Chemistry, University of Leuven, Celestijnenlaan, Heverlee, Belgium.
authors: Wim
authors: W
authors: Vandenberg
authors: Department of Chemistry, University of Leuven, Celestijnenlaan, Heverlee, Belgium.
authors: Peter
authors: P
authors: Dedecker
authors: Department of Chemistry, University of Leuven, Celestijnenlaan, Heverlee, Belgium.
authors: Johan
authors: J
authors: Hofkens
authors: Laboratoire d'Optique Biomédicale, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
authors: Theo
authors: T
authors: Lasser
mesh_terms: D000465:Algorithms; D006367:HeLa Cells; D006801:Humans; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D008856:Microscopy, Fluorescence; D012984:Software