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000893737 1001_ $$0P:(DE-HGF)0$$aCouto, Joao$$b0
000893737 245__ $$aChronic, cortex-wide imaging of specific cell populations during behavior
000893737 260__ $$aBasingstoke$$bNature Publishing Group$$c2021
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000893737 520__ $$aMeasurements of neuronal activity across brain areas are important for understanding the neural correlates of cognitive and motor processes such as attention, decision-making and action selection. However, techniques that allow cellular resolution measurements are expensive and require a high degree of technical expertise, which limits their broad use. Wide-field imaging of genetically encoded indicators is a high-throughput, cost-effective and flexible approach to measure activity of specific cell populations with high temporal resolution and a cortex-wide field of view. Here we outline our protocol for assembling a wide-field macroscope setup, performing surgery to prepare the intact skull and imaging neural activity chronically in behaving, transgenic mice. Further, we highlight a processing pipeline that leverages novel, cloud-based methods to analyze large-scale imaging datasets. The protocol targets laboratories that are seeking to build macroscopes, optimize surgical procedures for long-term chronic imaging and/or analyze cortex-wide neuronal recordings. The entire protocol, including steps for assembly and calibration of the macroscope, surgical preparation, imaging and data analysis, requires a total of 8 h. It is designed to be accessible to laboratories with limited expertise in imaging methods or interest in high-throughput imaging during behavior.
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000893737 7001_ $$0P:(DE-Juel1)175146$$aMusall, Simon$$b1$$ufzj
000893737 7001_ $$0P:(DE-HGF)0$$aSun, Xiaonan R.$$b2
000893737 7001_ $$0P:(DE-HGF)0$$aKhanal, Anup$$b3
000893737 7001_ $$0P:(DE-HGF)0$$aGluf, Steven$$b4
000893737 7001_ $$0P:(DE-HGF)0$$aSaxena, Shreya$$b5
000893737 7001_ $$0P:(DE-HGF)0$$aKinsella, Ian$$b6
000893737 7001_ $$0P:(DE-HGF)0$$aAbe, Taiga$$b7
000893737 7001_ $$0P:(DE-HGF)0$$aCunningham, John P.$$b8
000893737 7001_ $$0P:(DE-HGF)0$$aPaninski, Liam$$b9
000893737 7001_ $$0P:(DE-HGF)0$$aChurchland, 9and Anne K.$$b10$$eCorresponding author
000893737 773__ $$0PERI:(DE-600)2244966-8$$a10.1038/s41596-021-00527-z$$p3241–3263$$tNature protocols$$v16$$x1750-2799$$y2021
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