Quantitating the cell: turning images into numbers with ImageJ
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Summary
An overview of prominent imaging processing approaches in ImageJ is given that are of particular interest for biological imaging and that illustrate the functionality of ImageJ and other open source image analysis software.
- Type
- review
- Published
- 2017-03-01
- Cited by
- 145
- References
- 78
- OpenAlex
- https://openalex.org/W2560690681
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:35405783
Keywords
Computer science, Software, Image processing, Usability, Open source
References
- NIH Image to ImageJ: 25 years of Image Analysis
- A quantitative method for measuring phototoxicity of a live cell imaging microscope.
- ClearVolume: open-source live 3D visualization for light-sheet microscopy
- The ImageJ ecosystem: an open platform for biomedical image analysis
- Statistical analysis of molecule colocalization in bioimaging
- Investigating the regulation of stem and progenitor cell mitotic progression by in situ imaging.
- BigDataViewer: visualization and processing for large image data sets
- Spatial coordination between cell and nuclear shape within micropatterned endothelial cells
- An Integrated Micro- and Macroarchitectural Analysis of the Drosophila Brain by Computer-Assisted Serial Section Electron Microscopy
- Biological Imaging Software Tools
- OME Remote Objects (OMERO): a flexible, model-driven data management system for experimental biology
- Oncogenic targeting of BRM drives malignancy through C/EBPβ-dependent induction of α5 integrin
- Color quantification of stained maize stem section describes lignin spatial distribution within the whole stem.
- Efficient Bayesian-based multiview deconvolution
- A Call for Bioimaging Software Usability
- Quantum dot/antibody conjugates for in vivo cytometric imaging in mice
- Software for bead-based registration of selective plane illumination microscopy data
- Measurement of co‐localization of objects in dual‐colour confocal images
- Optical Sectioning Deep Inside Live Embryos by Selective Plane Illumination Microscopy
- A guide to accurate fluorescence microscopy colocalization measurements.
Cited by
- ImageJ2: ImageJ for the next generation of scientific image data
- Histomorphometric Parameters of the Growth Plate and Trabecular Bone in Wild-Type and Trefoil Factor Family 3 (Tff3)-Deficient Mice Analyzed by Free and Open-Source Image Processing Software
- SlideJ: An ImageJ plugin for automated processing of whole slide images
- Comparison between digital and optical microscopy: Analysis in a mouse gut inflammation model.
- The ImageJ Ecosystem: An Open and Extensible Platform for Biomedical Image Analysis.
- Neutrophil Chemotaxis and Transcriptomics in Term and Preterm Neonates
- Automated and Robust Quantification of Colocalization in Dual-Color Fluorescence Microscopy: A Nonparametric Statistical Approach
- Spatially Adaptive Colocalization Analysis in Dual-Color Fluorescence Microscopy
- Multi-Parametric Imaging of Hypoxia and Cell Cycle in Intestinal Organoid Culture.
- Micro-Droplet Detection Method for Measuring the Concentration of Alkaline Phosphatase-Labeled Nanoparticles in Fluorescence Microscopy
- Development of image analysis software for quantification of viable cells in microchips
- Imaging of oxygen and hypoxia in cell and tissue samples
- WGCNA Reveals Key Roles of IL8 and MMP-9 in Progression of Involvement Area in Colon of Patients with Ulcerative Colitis
- Impact of Toll-like Receptor 4 Stimulation on Human Neonatal Neutrophil Spontaneous Migration, Transcriptomics, and Cytokine Production
- Differentiation of spinal myxopapillary ependymomas from schwannomas by contrast-enhanced MRI.
- Sepsis is associated with reduced spontaneous neutrophil migration velocity in human adults
- A Comparison of Thresholding Methods for Forensic Reconstruction Studies Using Fluorescent Powder Proxies for Trace Materials
- Total Internal Reflection Fluorescence Microscopy for Investigation of Dynamics of Single Molecules
- Semi-blind sparse affine spectral unmixing of autofluorescence-contaminated micrographs
- Wnt canonical pathway activates macropinocytosis and lysosomal degradation of extracellular proteins
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