ArticlePLoS computational biology2016
Inferring Neuronal Dynamics from Calcium Imaging Data Using Biophysical Models and Bayesian Inference.
Article in PLoS computational biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Anti-NMDAR encephalitis impairs intrinsic hippocampal dynamics through neuronal hypercoupling, hub dominance, and aberrant ensembles.Molecular psychiatry · 2026Article
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- Layer 5 and 6b extratelencephalic neurons encode distinct sound features in auditory cortex.bioRxiv : the preprint server for biology · 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
- Universal differential equations as a unifying modeling language for neuroscience.Frontiers in computational neuroscience · 2025Review
- CHRFAM7A diversifies human immune adaption through CaEBioMedicine · 2024Article
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- Effective and efficient neural networks for spike inference fromCell reports methods · 2023Article
- Comparative Effects of Domain-Specific Human Monoclonal Antibodies Against LGI1 on Neuronal Excitability.Neurology(R) neuroimmunology & neuroinflammation · 2023Article
- Do sparse brain activity patterns underlie human cognition?NeuroImage · 2022Article
- Measurement of arbitrary scan patterns for correction of imaging distortions in laser scanning microscopy.Biomedical optics express · 2022Article
- Bayesian inference of molecular kinetic parameters from astrocyte calcium imaging data.MethodsX · 2022Article
- Electrophysiology Read-Out Tools for Brain-on-Chip Biotechnology.Micromachines · 2021Review
- Comparative Effects of Event Detection Methods on the Analysis and Interpretation of CaFrontiers in neuroscience · 2021Article
- Dynamic Tracking Algorithm for Time-Varying Neuronal Network Connectivity using Wide-Field Optical Image Video Sequences.Scientific reports · 2020Article
- Experimental and Computational Study on Motor Control and Recovery After Stroke: Toward a Constructive Loop Between Experimental and Virtual Embodied Neuroscience.Frontiers in systems neuroscience · 2020Article
- Insights Into Spinal Dorsal Horn Circuit Function and Dysfunction Using Optical Approaches.Frontiers in neural circuits · 2020Review
- Neural Interactome: Interactive Simulation of a Neuronal System.Frontiers in computational neuroscience · 2019Article
- Information-Theoretic Approach and Fundamental Limits of Resolving Two Closely Timed Neuronal Spikes in Mouse Brain Calcium Imaging.IEEE transactions on bio-medical engineering · 2018Article
- Memory corticalization triggered by REM sleep: mechanisms of cellular and systems consolidation.Cellular and molecular life sciences : CMLS · 2018Review
Corrections and comments
- Erratum issued
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Calcium imaging has been used as a promising technique to monitor the dynamic activity of neuronal populations. However, the calcium trace is temporally smeared which restricts the extraction of quantities of interest such as spike trains of individual neurons. To address this issue, spike reconstruction algorithms have been introduced. One limitation of such reconstructions is that the underlying models are not informed about the biophysics of spike and burst generations. Such existing prior knowledge might be useful for constraining the possible solutions of spikes. Here we describe, in a novel Bayesian approach, how principled knowledge about neuronal dynamics can be employed to infer biophysical variables and parameters from fluorescence traces. By using both synthetic and in vitro recorded fluorescence traces, we demonstrate that the new approach is able to reconstruct different repetitive spiking and/or bursting patterns with accurate single spike resolution. Furthermore, we show that the high inference precision of the new approach is preserved even if the fluorescence trace is rather noisy or if the fluorescence transients show slow rise kinetics lasting several hundred milliseconds, and inhomogeneous rise and decay times. In addition, we discuss the use of the new approach for inferring parameter changes, e.g. due to a pharmacological intervention, as well as for inferring complex characteristics of immature neuronal circuits.
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Registered trials
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.