ArticleFrontiers in neural circuits2020
EZcalcium: Open-Source Toolbox for Analysis of Calcium Imaging Data.
Article in Frontiers in neural circuits, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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Who cites it
66 citing papers in PubMed.
- A developmental shift in glucocorticoid receptor expression preserves glucocorticoid sensitivity in the adult suprachiasmatic nucleus.PLoS biology · 2026Article
- Protocol for characterization of spatiotemporal network dynamics in cortical and hippocampal assembloids.STAR protocols · 2026Article
- An Open-Source Pipeline for Calcium Imaging and All-Optical Physiology in Human Stem Cell-Derived Neurons.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- LUMIN: an automated graphical analysis toolbox for high-throughput calcium imaging of in vitro neuronal cultures.Scientific reports · 2026Article
- Induced epileptic seizures in larval zebrafish reveal a synaptic modulation associated with the post-ictal state.Brain communications · 2026Article
- Automated ROI detection allows rapid quantification of synaptic activity across tens of thousands of synapses in cell culture.Frontiers in synaptic neuroscience · 2026Article
- Dissecting neuronal circuit function and dysfunction in Alzheimer's disease mouse models: from conventional calcium imaging analysis to machine learning-based approaches.Frontiers in aging neuroscience · 2026Review
- Quantification of morphological, functional, and biochemical features of H9c2 rat cardiomyoblast retinoic acid differentiation.Journal of molecular and cellular cardiology plus · 2025Article
- A Semi-Automatic Tool for the Standardized Analysis of Fluorescent Intensity Changes in Polarized Cells.International journal of molecular sciences · 2025Article
- Dynamic recruitment of PV interneurons in the somatosensory cortex induced by experience dependent plasticity.bioRxiv : the preprint server for biology · 2025Article
- A high-performance fluorescent sensor spatiotemporally reveals cell-type specific regulation of intracellular adenosine in vivo.Nature communications · 2025Article
- CalciumZero: a toolbox for fluorescence calcium imaging on iPSC derived brain organoids.Brain informatics · 2025Article
- Window into the Brain: In Vivo Multiphoton Imaging.ACS photonics · 2025Review
- Calcium Imaging in Drosophila.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Modeling Parkinson's disease pathology in human dopaminergic neurons by sequential exposure to α-synuclein fibrils and proinflammatory cytokines.Nature neuroscience · 2024Article
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- A simple MATLAB toolbox for analyzing calcium imaging data in vitro and in vivo.Journal of neuroscience methods · 2024Article
- FluoAnalysis: An Open-Source MATLAB Toolbox for Analysis of Calcium Imaging Measurements of Oscillatory Astrocytic and Neuronal Networks.Brain sciences · 2024Article
- Adapting and facilitating responses in mouse somatosensory cortex are dynamic and shaped by experience.Current biology : CB · 2024Article
6 more citing papers are in PubMed but not listed here.
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Authors and funding
10 authors.
Funding
Abstract
Fluorescence calcium imaging using a range of microscopy approaches, such as two-photon excitation or head-mounted "miniscopes," is one of the preferred methods to record neuronal activity and glial signals in various experimental settings, including acute brain slices, brain organoids, and behaving animals. Because changes in the fluorescence intensity of genetically encoded or chemical calcium indicators correlate with action potential firing in neurons, data analysis is based on inferring such spiking from changes in pixel intensity values across time within different regions of interest. However, the algorithms necessary to extract biologically relevant information from these fluorescent signals are complex and require significant expertise in programming to develop robust analysis pipelines. For decades, the only way to perform these analyses was for individual laboratories to write their custom code. These routines were typically not well annotated and lacked intuitive graphical user interfaces (GUIs), which made it difficult for scientists in other laboratories to adopt them. Although the panorama is changing with recent tools like
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.