ArticleNeurophotonics2015
NeuroCa: integrated framework for systematic analysis of spatiotemporal neuronal activity patterns from large-scale optical recording data.
Article in Neurophotonics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- 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
- Harnessing the potential of human induced pluripotent stem cells, functional assays and machine learning for neurodevelopmental disorders.Frontiers in neuroscience · 2024Review
- ALDH5A1-deficient iPSC-derived excitatory and inhibitory neurons display cell type specific alterations.Neurobiology of disease · 2024Article
- Cortical neuronal hyperexcitability and synaptic changes in SGCE mutation-positive myoclonus dystonia.Brain : a journal of neurology · 2023Article
- NRSF/REST lies at the intersection between epigenetic regulation, miRNA-mediated gene control and neurodevelopmental pathways associated with Intellectual disability (ID) and Schizophrenia.Translational psychiatry · 2022Article
- Focused ultrasound excites cortical neurons via mechanosensitive calcium accumulation and ion channel amplification.Nature communications · 2022Article
- Analysis of co-isogenic prion protein deficient mice reveals behavioral deficits, learning impairment, and enhanced hippocampal excitability.BMC biology · 2022Article
- Acoustically triggered mechanotherapy using genetically encoded gas vesicles.Nature nanotechnology · 2021Article
- CalTrack: High-Throughput Automated Calcium Transient Analysis in Cardiomyocytes.Circulation research · 2021Article
- A simple CaJournal of neuroscience methods · 2021Article
- Adult mouse dorsal root ganglia neurons form aberrant glutamatergic connections in dissociated cultures.PloS one · 2021Article
- Microglial GNature neuroscience · 2021Article
- Response Latency Tuning by Retinal Circuits Modulates Signal Efficiency.Scientific reports · 2019Article
- CALIMA: The semi-automated open-source calcium imaging analyzer.Computer methods and programs in biomedicine · 2019Article
- SICT: automated detection and supervised inspection of fast CaScientific reports · 2018Article
- All-Optical Assay to Study Biological Neural Networks.Frontiers in neuroscience · 2018Article
- PeakCaller: an automated graphical interface for the quantification of intracellular calcium obtained by high-content screening.BMC neuroscience · 2017Article
- Influence of tetramethylenedisulfotetramine on synchronous calcium oscillations at distinct developmental stages of hippocampal neuronal cultures.Neurotoxicology · 2017Article
- Reconstruction of burst activity from calcium imaging of neuronal population via Lq minimization and interval screening.Biomedical optics express · 2016Article
Corrections and comments
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Authors and funding
2 authors.
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Abstract
Optical recording facilitates monitoring the activity of a large neural network at the cellular scale, but the analysis and interpretation of the collected data remain challenging. Here, we present a MATLAB-based toolbox, named NeuroCa, for the automated processing and quantitative analysis of large-scale calcium imaging data. Our tool includes several computational algorithms to extract the calcium spike trains of individual neurons from the calcium imaging data in an automatic fashion. Two algorithms were developed to decompose the imaging data into the activity of individual cells and subsequently detect calcium spikes from each neuronal signal. Applying our method to dense networks in dissociated cultures, we were able to obtain the calcium spike trains of [Formula: see text] neurons in a few minutes. Further analyses using these data permitted the quantification of neuronal responses to chemical stimuli as well as functional mapping of spatiotemporal patterns in neuronal firing within the spontaneous, synchronous activity of a large network. These results demonstrate that our method not only automates time-consuming, labor-intensive tasks in the analysis of neural data obtained using optical recording techniques but also provides a systematic way to visualize and quantify the collective dynamics of a network in terms of its cellular elements.
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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.