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A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology

View ORCID ProfileZiqiang Wei, Bei-Jung Lin, Tsai-Wen Chen, Kayvon Daie, Karel Svoboda, Shaul Druckmann
doi: https://doi.org/10.1101/840686
Ziqiang Wei
1Janelia Research Campus, HHMI, Ashburn, VA 20147
2The Solomon H. Snyder Department of Neuroscience, Johns Hopkins University School of Medicine, Baltimore, MD 21205
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  • ORCID record for Ziqiang Wei
Bei-Jung Lin
1Janelia Research Campus, HHMI, Ashburn, VA 20147
3Institute of Neuroscience, National Yang-Ming University, Taipei, Taiwan
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Tsai-Wen Chen
1Janelia Research Campus, HHMI, Ashburn, VA 20147
3Institute of Neuroscience, National Yang-Ming University, Taipei, Taiwan
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Kayvon Daie
1Janelia Research Campus, HHMI, Ashburn, VA 20147
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Karel Svoboda
1Janelia Research Campus, HHMI, Ashburn, VA 20147
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  • For correspondence: svobodak@janelia.hhmi.org shauld@stanford.edu
Shaul Druckmann
1Janelia Research Campus, HHMI, Ashburn, VA 20147
4Department of Neurobiology, Stanford University
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  • For correspondence: svobodak@janelia.hhmi.org shauld@stanford.edu
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Summary

Calcium imaging with fluorescent protein sensors is widely used to record activity in neuronal populations. The transform between neural activity and calcium-related fluorescence involves nonlinearities and a low-pass filter, but the effects of the transformation on analyses of neural populations are not well understood. We compared neuronal spikes and fluorescence in matched neural populations in behaving mice. We report multiple discrepancies between analyses performed on the two types of data, which were only partially resolved by spike inference algorithms applied to fluorescence. To model the relation between spiking and fluorescence we simultaneously recorded spikes and fluorescence from individual neurons. Using these recordings we developed a model transforming spike trains to synthetic-imaging data. The model recapitulated the differences in analyses. Our analysis highlights challenges in relating electrophysiology and imaging data, and suggests forward modeling as an effective way to understand differences between these data.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted November 15, 2019.
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A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology
Ziqiang Wei, Bei-Jung Lin, Tsai-Wen Chen, Kayvon Daie, Karel Svoboda, Shaul Druckmann
bioRxiv 840686; doi: https://doi.org/10.1101/840686
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A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology
Ziqiang Wei, Bei-Jung Lin, Tsai-Wen Chen, Kayvon Daie, Karel Svoboda, Shaul Druckmann
bioRxiv 840686; doi: https://doi.org/10.1101/840686

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