Open Ephys electroencephalography (Open Ephys  +  EEG): a modular, low-cost, open-source solution to human neural recording

Black, Christopher J.; Voigts, Jakob; Agrawal, Uday; Ladow, Max; Santoyo, Juan F.; Moore, Christopher I.; Jones, Stephanie R.

doi:10.1088/1741-2552/aa651f

Cited by 36 publications

(31 citation statements)

References 34 publications

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“…The panel pointed out there was significant public interest in neural interfaces, extending even to growing DIY ("do it yourself") communities that are emerging around neural recording technologies (e.g. the Open-BCI project [129], open source EEG [130] and DIY brain stimulation methodologies [131]- [134]. The panel argued that providing a larger number of reliable and effective noninvasive neural sensing technologies would increase commercial and public interest and thus increase the probability of a successful high-profile commercial application.…”

Section: Reducing the Risk Profiles Of Neural Sensors And Stimulatmentioning

confidence: 99%

Developing Next-Generation Brain Sensing Technologies—A Review

et al. 2019

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Advances in sensing technology raise the possibility of creating neural interfaces that can more effectively restore or repair neural function and reveal fundamental properties of neural information processing. To realize the potential of these bioelectronic devices, it is necessary to understand the capabilities of emerging technologies and identify the best strategies to translate these technologies into products and therapies that will improve the lives of patients with neurological and other disorders. Here, we discuss emerging technologies for sensing brain activity, anticipated challenges for translation, and perspectives for how to best transition these technologies from academic research labs to useful products for neuroscience researchers and human patients.

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Section: Reducing the Risk Profiles Of Neural Sensors And Stimulatmentioning

confidence: 99%

Developing Next-Generation Brain Sensing Technologies—A Review

et al. 2019

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“…In the neuroscience community, there has lately been a call for a world-wide open source effort (http://www.opensourceforneuroscience.org/) to standardize methods and share data in order to make break-through advancements in such a complicated field [15]. Many open hardware and software solutions have been developed for various aspects of neuroscience, including acquisition systems for electrophysiology [33,2], portable miniscopes [6,24], software tools for real-time interface with external devices [25], and closed-loop systems [7,33].…”

Section: Introductionmentioning

confidence: 99%

Open source modules for tracking animal behavior and closed-loop stimulation based on Open Ephys and Bonsai

Buccino

Lepperød

Dragly

et al. 2018

Preprint

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Objective. A major goal in systems neuroscience is to determine the causal relationship between neural activity and behavior. To this end, methods that combine monitoring neural activity, behavioral tracking, and targeted manipulation of neurons in closed-loop are powerful tools. However, commercial systems that allow these types of experiments are usually expensive and rely on non-standardized data formats and proprietary software which may hinder user-modifications for specific needs. In order to promote reproducibility and data-sharing in science, transparent software and standardized data formats are an advantage. Here, we present an open source, lowcost, adaptable, and easy to set-up system for combined behavioral tracking, electrophysiology and closed-loop stimulation. Approach. Based on the Open Ephys system (www.open-ephys.org) we developed multiple modules to include real-time tracking and behavior-based closed-loop stimulation. We describe the equipment and provide a step-by-step guide to set up the system. Combining the open source software Bonsai (bonsai-rx.org) for analyzing camera images in real time with the newly developed modules in Open Ephys, we acquire position information, visualize tracking, and perform tracking-based closed-loop stimulation experiments. To analyze the acquired data we provide an open source file reading package in Python. Main results. The system robustly visualizes real-time tracking and reliably recovers tracking information recorded from a range of sampling frequencies (30-1000Hz). We combined electrophysiology with the newly-developed tracking modules in Open Ephys to record place cell and grid cell activity in the hippocampus and in the medial entorhinal cortex, respectively. Moreover, we present a case in which we used the system for closed-loop optogenetic stimulation of entorhinal grid cells. Significance. Expanding the Open Ephys system to include animal tracking and behavior-based closed-loop stimulation extends the availability of high-quality, low-cost experimental setup within standardized data formats serving the neuroscience community.

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“…The advent of easy-to-use microcontrollers, off-the-shelf electronics and customizable manufacturing technologies such as 3D printers and laser-cutting machines, has given rise to a diverse community of open hardware developers, users and tinkerers. This ethos has facilitated the development of inexpensive scientific devices and laboratory equipment [ 1 – 4 ]; such as PCR thermocyclers [ 5 ], photometric sensors [ 6 ], a quartz crystal microbalance [ 7 ] and neuroscience instrumentation [ 8 – 10 ], among many others [ 11 ]. The use of online platforms for project documentation and sharing [ 12 – 14 ], along with the implementation of collaborative practices borrowed from the FLOSS community, is enabling crowdsourced development of advance instrumentation (e.g [ 15 ]).…”

Section: Introductionmentioning

confidence: 99%

Low cost and open source multi-fluorescence imaging system for teaching and research in biology and bioengineering

Núñez

Matute

Herrera³

et al. 2017

PLoS ONE

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The advent of easy-to-use open source microcontrollers, off-the-shelf electronics and customizable manufacturing technologies has facilitated the development of inexpensive scientific devices and laboratory equipment. In this study, we describe an imaging system that integrates low-cost and open-source hardware, software and genetic resources. The multi-fluorescence imaging system consists of readily available 470 nm LEDs, a Raspberry Pi camera and a set of filters made with low cost acrylics. This device allows imaging in scales ranging from single colonies to entire plates. We developed a set of genetic components (e.g. promoters, coding sequences, terminators) and vectors following the standard framework of Golden Gate, which allowed the fabrication of genetic constructs in a combinatorial, low cost and robust manner. In order to provide simultaneous imaging of multiple wavelength signals, we screened a series of long stokes shift fluorescent proteins that could be combined with cyan/green fluorescent proteins. We found CyOFP1, mBeRFP and sfGFP to be the most compatible set for 3-channel fluorescent imaging. We developed open source Python code to operate the hardware to run time-lapse experiments with automated control of illumination and camera and a Python module to analyze data and extract meaningful biological information. To demonstrate the potential application of this integral system, we tested its performance on a diverse range of imaging assays often used in disciplines such as microbial ecology, microbiology and synthetic biology. We also assessed its potential use in a high school environment to teach biology, hardware design, optics, and programming. Together, these results demonstrate the successful integration of open source hardware, software, genetic resources and customizable manufacturing to obtain a powerful, low cost and robust system for education, scientific research and bioengineering. All the resources developed here are available under open source licenses.

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Open Ephys electroencephalography (Open Ephys + EEG): a modular, low-cost, open-source solution to human neural recording

Abstract: Open Ephys + EEG enables users to acquire high-quality human EEG data comparable to that of commercially available systems, while maintaining the price point and extensibility inherent to open-source systems.

Cited by 36 publications

References 34 publications

Developing Next-Generation Brain Sensing Technologies—A Review

Developing Next-Generation Brain Sensing Technologies—A Review

Open source modules for tracking animal behavior and closed-loop stimulation based on Open Ephys and Bonsai

Low cost and open source multi-fluorescence imaging system for teaching and research in biology and bioengineering

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