TANGO: a generic tool for high-throughput 3D image analysis for studying nuclear organization. Ollion, J., Cochennec, J., Loll, F., Escudé, C. MorphoLibJ: integrated library and plugins for mathematical morphology with ImageJ. Third-generation in situ hybridization chain reaction: multiplexed, quantitative, sensitive, versatile, robust. Expansion microscopy: protocols for imaging proteins and RNA in cells and tissues. Imaging neuronal subsets in transgenic mice expressing multiple spectral variants of GFP. Behavioral state coding by molecularly defined paraventricular hypothalamic cell type ensembles. The allen mouse brain common coordinate framework: a 3D reference atlas.
NEUROTRACKER NEURITE QUANTIFICATION SOFTWARE
Brainrender: a python based software for visualisation of neuroanatomical and morphological data. The natverse, a versatile toolbox for combining and analysing neuroanatomical data. Neuronal morphometry directly from bitmap images. L-Measure: a web-accessible tool for the analysis, comparison and search of digital reconstructions of neuronal morphologies.
Gene regulatory network evolution through augmenting topologies. A framework for modeling the growth and development of neurons and networks. Connectomes across development reveal principles of brain maturation in C. ImageJ2: ImageJ for the next generation of scientific image data. The virtual fly brain browser and query interface. Reconstruction of 1,000 projection neurons reveals new cell types and organization of long-range connectivity in the mouse brain.
NEUROTRACKER NEURITE QUANTIFICATION ARCHIVE
InsectBrainDatabase-a unified platform to manage, share, and archive morphological and functional data.
Three-dimensional reconstruction of brain-wide wiring networks in Drosophila at single-cell resolution. Scenery: flexible virtual reality visualization on the Java VM. Simple Neurite Tracer: open source software for reconstruction, visualization and analysis of neuronal processes. NIH Image to ImageJ: 25 years of image analysis. Fiji: an open-source platform for biological-image analysis. NeuroMorpho.Org: a central resource for neuronal morphologies. The assay technique uses Millicell ® semi-porous culture inserts (1uM, 3uM) and optimized reagents to easily analyze neurite outgrowth using a common colorimetric or chemiluminescence detection.Ascoli, G. Neurite Outgrowth Assays have been optimized and developed for characterization and quantification of neurite formation, composition, and behavior in response to chemical agents and growth conditions.
In order to investigate neurite outgrowth, researchers need an effective methods for growing neurons in culture, stimulating the cells with neurogenic compounds, such as growth factors, and monitoring the growing neurites. Understanding the biology of neurite outgrowth can shed light on mechanisms underlying certain neurodegenerative diseases 3. Dynamic neurite outgrowth during development results in the formation of a complex neuronal architecture that results in the establishment of the functional nervous system and brain 2. Nerve growth factors, or neurotrophins, are one family of such stimuli that regulate neurite growth 1. Neurite Outgrowth is a process wherein developing neurons produce new projections as they grow in response to guidance cues.
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