ArticleNature methods2022
Detecting and correcting false transients in calcium imaging.
Article in Nature methods, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Single-Cell Perturbations Reveal Selective Modulation of Causal Connectivity During Decision-Making.bioRxiv : the preprint server for biology · 2026Article
- Osmolarity Controls Oscillatory Calcium Signaling to Reduce Autonomous Aldosterone Production in Zona Glomerulosa Cells.Endocrinology · 2025Article
- SLAy-ing oversplitting errors in high-density electrophysiology spike sorting.bioRxiv : the preprint server for biology · 2025Article
- Improved inference of latent neural states from calcium imaging data.bioRxiv : the preprint server for biology · 2025Article
- Precise Extraction of Neural Motifs Reveals Multiscale, Parallel Encoding Schemes in Auditory Cortex.bioRxiv : the preprint server for biology · 2025Article
- Increased excitatory synapse size in hippocampal place cells compared to silent cells.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Optical Neuroimage Studio (OptiNiSt): Intuitive, scalable, extendable framework for optical neuroimage data analysis.PLoS computational biology · 2025Article
- Article
- Sub-cellular population imaging tools reveal stable apical dendrites in hippocampal area CA3.Nature communications · 2025Article
- Interpretable deep learning for deconvolutional analysis of neural signals.bioRxiv : the preprint server for biology · 2024Article
- A Large Field-of-view, Single-cell-resolution Two- and Three-Photon Microscope for Deep Imaging.bioRxiv : the preprint server for biology · 2024Article
- Article
- Network instability dynamics drive a transient bursting period in the developing hippocampus in vivo.eLife · 2022Article
- Review of data processing of functional optical microscopy for neuroscience.Neurophotonics · 2022Review
- An Open-Source Real-Time Motion Correction Plug-In for Single-Photon Calcium Imaging of Head-Mounted Microscopy.Frontiers in neural circuits · 2022Article
- GraFT: Graph Filtered Temporal Dictionary Learning for Functional Neural Imaging.IEEE transactions on image processing : a publication of the IEEE Signal Processing Society · 2022Article
- Neural anatomy and optical microscopy (NAOMi) simulation for evaluating calcium imaging methods.Journal of neuroscience methods · 2021Article
- Decontaminate Traces From Fluorescence Calcium Imaging Videos Using Targeted Non-negative Matrix Factorization.Frontiers in neuroscience · 2021Article
- Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Population recordings of calcium activity are a major source of insight into neural function. Large datasets require automated processing, but this can introduce errors that are difficult to detect. Here we show that popular time course-estimation algorithms often contain substantial misattribution errors affecting 10-20% of transients. Misattribution, in which fluorescence is ascribed to the wrong cell, arises when overlapping cells and processes are imperfectly defined or not identified. To diagnose misattribution, we develop metrics and visualization tools for evaluating large datasets. To correct time courses, we introduce a robust estimator that explicitly accounts for contaminating signals. In one hippocampal dataset, removing contamination reduced the number of place cells by 15%, and 19% of place fields shifted by over 10 cm. Our methods are compatible with other cell-finding techniques, empowering users to diagnose and correct a potentially widespread problem that could alter scientific conclusions.
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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.