ArticleNature protocols2016
Visualization of cortical, subcortical and deep brain neural circuit dynamics during naturalistic mammalian behavior with head-mounted microscopes and chronically implanted lenses.
Article in Nature protocols, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 189 papers, 1 of them a synthesis that pooled it.
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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.
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Who cites it
189 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Social valence dictates sex differences in identity recognition.Translational psychiatry · 2026Article
- Complementary cortical and thalamic contributions to cell type-specific striatal activity dynamics during movement.Science advances · 2026Article
- Neural substrate of conditioned stimulus for associative learning in the hippocampus.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Accumbal calcium-permeable AMPA receptors orchestrate neuronal ensembles underlying social attachment.Nature communications · 2026Article
- Deep learning and superoscillatory speckles empowered multimode fiber probe for in situ nano-displacement detection and micro-imaging.Nature communications · 2026Article
- Reliable Inference of the Encoding of Task States by Individual Neurons Using Calcium Imaging.eNeuro · 2026Article
- In vivo imaging analyses to explore the integration of multimodal aversive sensory information in the central amygdala.Scientific reports · 2025Article
- Calcium Imaging in Vivo: How to Correctly Select and Apply Fiber Optic Photometric Indicators.Organogenesis · 2025Review
- Large field-of-view volumetric deep brain imaging through gradient-index lenses.Nature communications · 2025Article
- Leveraging Fiber Photometry to Decipher Neural Circuits Underlying Anxiety in Mice.Fundamental & clinical pharmacology · 2025Review
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129 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
Genetically encoded calcium indicators for visualizing dynamic cellular activity have greatly expanded our understanding of the brain. However, owing to the light-scattering properties of the brain, as well as the size and rigidity of traditional imaging technology, in vivo calcium imaging has been limited to superficial brain structures during head-fixed behavioral tasks. These limitations can now be circumvented by using miniature, integrated microscopes in conjunction with an implantable microendoscopic lens to guide light into and out of the brain, thus permitting optical access to deep brain (or superficial) neural ensembles during naturalistic behaviors. Here we describe steps to conduct such imaging studies using mice. However, we anticipate that the protocol can be easily adapted for use in other small vertebrates. Successful completion of this protocol will permit cellular imaging of neuronal activity and the generation of data sets with sufficient statistical power to correlate neural activity with stimulus presentation, physiological state and other aspects of complex behavioral tasks. This protocol takes 6-11 weeks to complete.
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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.