ArticleNature computational science2023
Dimensionality reduction of calcium-imaged neuronal population activity.
Article in Nature computational science, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
13 citing papers in PubMed.
- 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
- Disentangling Stimulus & Population Dynamics in Mouse V1: Orthogonal Subspace Decomposition for Neural Representation.bioRxiv : the preprint server for biology · 2025Article
- Improved inference of latent neural states from calcium imaging data.bioRxiv : the preprint server for biology · 2025Article
- AI-Powered Mice Behavior Tracking and Its Application for Neuronal Manifold Analysis Based on Hippocampal Ensemble Activity in an Alzheimer's Disease Mice Model.International journal of molecular sciences · 2025Article
- Unraveling the neural code: analysis of large-scale two-photon microscopy data.Microscopy (Oxford, England) · 2025Review
- High-dimensional neuronal activity from low-dimensional latent dynamics: a solvable model.bioRxiv : the preprint server for biology · 2025Article
- Transformations in prefrontal ensemble activity underlying rapid threat avoidance learning.Current biology : CB · 2025Article
- Dynamical modeling of nonlinear latent factors in multiscale neural activity with real-time inference.Advances in neural information processing systems · 2025Article
- Mesoscale neuronal granular trial variability in vivo illustrated by nonlinear recurrent network in silico.Nature communications · 2024Article
- Nonnegative matrix factorization for analyzing state dependent neuronal network dynamics in calcium recordings.Scientific reports · 2024Article
- Identifying behavioral links to neural dynamics of multifiber photometry recordings in a mouse social behavior network.Journal of neural engineering · 2024Article
- Non-Negative Matrix Factorization for Analyzing State Dependent Neuronal Network Dynamics in Calcium Recordings.bioRxiv : the preprint server for biology · 2024Article
- Identifying behavioral links to neural dynamics of multifiber photometry recordings in a mouse social behavior network.bioRxiv : the preprint server for biology · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors.
Funding
Abstract
Calcium imaging has been widely adopted for its ability to record from large neuronal populations. To summarize the time course of neural activity, dimensionality reduction methods, which have been applied extensively to population spiking activity, may be particularly useful. However, it is unclear if the dimensionality reduction methods applied to spiking activity are appropriate for calcium imaging. We thus carried out a systematic study of design choices based on standard dimensionality reduction methods. We also developed a method to perform deconvolution and dimensionality reduction simultaneously (Calcium Imaging Linear Dynamical System, CILDS). CILDS most accurately recovered the single-trial, low-dimensional time courses from simulated calcium imaging data. CILDS also outperformed the other methods on calcium imaging recordings from larval zebrafish and mice. More broadly, this study represents a foundation for summarizing calcium imaging recordings of large neuronal populations using dimensionality reduction in diverse experimental settings.
Identifiers
What OpenQuestion holds
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.