Daniel Aharoni
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View article: Simultaneous two-color imaging with a dual-channel miniscope in freely behaving mice
Simultaneous two-color imaging with a dual-channel miniscope in freely behaving mice Open
Miniaturized fluorescence microscopes (miniscopes) enable imaging of calcium events from a large population of neurons in freely behaving animals. Traditionally, miniscopes have only been able to record from a single fluorescence wavelengt…
MiniXL: An open-source, large field-of-view epifluorescence miniscope enabling single-cell resolution and multi-region imaging in mice Open
Capturing the intricate dynamics of neural activity in freely behaving animals is essential for understanding the neural mechanisms underpinning specific behaviors. Miniaturized microscopy enables investigators to track population activity…
GRIN lens implantation strategies for in vivo calcium imaging using miniature microscopy Open
Miniature microscopy (Miniscope) has become one of the most popular and valuable neuroscience tools in the last decade. Miniscope in vivo calcium imaging during freely moving behavior has led to a number of transformative discoveries about…
Protocol of GRIN lens implantation for in vivo calcium imaging using miniature microscopy v1 Open
Miniature microscopy (Miniscope) has become one of the most popular and valuable neuroscience tools in the last decade. Miniscope in vivo calcium imaging during freely moving behavior has led to a number of transformative discoveries about…
Special Section Guest Editorial: Open-source neurophotonic tools for neuroscience Open
The editorial completes the Neurophotonics special series on open-source neurophotonic tools for neuroscience.
MiniXL: An open-source, large field-of-view epifluorescence miniature microscope for mice capable of single-cell resolution and multi-brain region imaging Open
Capturing the intricate dynamics of neural activity in freely behaving animals is essential for understanding the neural mechanisms underpinning specific behaviors. Miniaturized microscopy enables investigators to track population activity…
View article: Simultaneous dual-color calcium imaging in freely-behaving mice
Simultaneous dual-color calcium imaging in freely-behaving mice Open
Miniaturized fluorescence microscopes (miniscopes) enable imaging of calcium events from a large population of neurons in freely behaving animals. Traditionally, miniscopes have only been able to record from a single fluorescence wavelengt…
Open-source, high performance miniature multiphoton microscopy systems for freely behaving animals Open
Here we describe the development of the UCLA 2P Miniscope, an easily adopted, open-source miniature 2-photon microscope capable of recording calcium dynamics from neurons located in deep structures and in dendrites over a 445 μm x 380 μm f…
Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
The cerebellum has been implicated in the regulation of social behavior. Its influence is thought to arise from communication, via the thalamus, to forebrain regions integral in the expression of social interactions, including the anterior…
Author Response: Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
Full text Figures and data Side by side Abstract eLife assessment eLife digest Introduction Results Discussion Methods Data availability References Peer review Author response Article and author information Abstract The cerebellum has been…
Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
The cerebellum has been implicated in the regulation of social behavior. Its influence is thought to arise from communication, via the thalamus, to forebrain regions integral in the expression of social interactions, including the anterior…
Author Response: Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
The cerebellum has been implicated in the regulation of social behavior. Its influence is thought to arise from communication, via the thalamus, to forebrain regions integral in the expression of social interactions, including the anterior…
Accelerated social representational drift in the nucleus accumbens in a model of autism Open
Summary Impaired social interaction is one of the core deficits of autism spectrum disorder (ASD) and may result from social interactions being less rewarding. How the nucleus accumbens (NAc), as a key hub of reward circuitry, encodes soci…
Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
The cerebellum has been implicated in the regulation of social behavior. Its influence is thought to arise from communication, via the thalamus, to forebrain regions integral in the expression of social interactions, including the anterior…
Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
The cerebellum has been implicated in the regulation of social behavior. Its influence is thought to arise from communication, via the thalamus, to forebrain regions integral in the expression of social interactions, including the anterior…
Hippocampal place cell remapping occurs with memory storage of aversive experiences Open
Aversive stimuli can cause hippocampal place cells to remap their firing fields, but it is not known whether remapping plays a role in storing memories of aversive experiences. Here, we addressed this question by performing in vivo calcium…
Author response: Hippocampal place cell remapping occurs with memory storage of aversive experiences Open
Full text Figures and data Side by side Abstract Editor's evaluation eLife digest Introduction Results Discussion Methods Data availability References Decision letter Author response Article and author information Metrics Abstract Aversive…
Miniscope-LFOV: A large-field-of-view, single-cell-resolution, miniature microscope for wired and wire-free imaging of neural dynamics in freely behaving animals Open
Imaging large-population, single-cell fluorescent dynamics in freely behaving animals larger than mice remains a key endeavor of neuroscience. We present a large-field-of-view open-source miniature microscope (MiniLFOV) designed for large-…
Correlated signatures of social behavior in cerebellum and anterior cingulate cortex Open
The cerebellum has been implicated in the regulation of social behavior. Its influence is thought to arise from communication, via the thalamus, to forebrain regions integral in the expression of social interactions, including the anterior…
FPGA-Based In-Vivo Calcium Image Decoding for Closed-Loop Feedback Applications Open
Miniaturized calcium imaging is an emerging neural recording technique that has been widely used for monitoring neural activity on a large scale at a specific brain region of rats or mice. Most existing calcium-image analysis pipelines ope…
A hardware system for real-time decoding of in vivo calcium imaging data Open
Epifluorescence miniature microscopes (‘miniscopes’) are widely used for in vivo calcium imaging of neural population activity. Imaging data are typically collected during a behavioral task and stored for later offline analysis, but emergi…
Author response: A hardware system for real-time decoding of in vivo calcium imaging data Open
Article Figures and data Abstract Editor's evaluation Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract Epifluorescence miniat…
FPGA-Based In-Vivo Calcium Image Decoding for Closed-Loop Feedback Applications Open
Miniaturized calcium imaging is an emerging neural recording technique that has been widely used for monitoring neural activity on a large scale at a specific brain region of rats or mice. Most existing calcium-image analysis pipelines ope…
BehaviorDEPOT is a simple, flexible tool for automated behavioral detection based on markerless pose tracking Open
Quantitative descriptions of animal behavior are essential to study the neural substrates of cognitive and emotional processes. Analyses of naturalistic behaviors are often performed by hand or with expensive, inflexible commercial softwar…
View article: Minian, an open-source miniscope analysis pipeline
Minian, an open-source miniscope analysis pipeline Open
Miniature microscopes have gained considerable traction for in vivo calcium imaging in freely behaving animals. However, extracting calcium signals from raw videos is a computationally complex problem and remains a bottleneck for many rese…
Hippocampal place cell remapping occurs with memory storage of aversive experiences Open
Aversive stimuli can cause hippocampal place cells to remap their firing fields, but it is not known whether remapping plays a role in storing memories of aversive experiences. Here we addressed this question by performing in-vivo calcium …
DeCalciOn: A hardware system for real-time decoding of <i>in-vivo</i> calcium imaging data Open
Epifluorescence miniature microscopes (“miniscopes”) are widely used for in vivo calcium imaging of neural population activity. Imaging data is usually collected while subjects are engaged in a task and stored for later offline analysis, b…
Author response: BehaviorDEPOT is a simple, flexible tool for automated behavioral detection based on markerless pose tracking Open
Article Figures and data Abstract Editor's evaluation Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract Quantitative descripti…