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Coventry BS, Luu CP, Bartlett EL. Focal Infrared Neural Stimulation Propagates Dynamical Transformations in Auditory Cortex. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.03.12.642906. [PMID: 40161605 PMCID: PMC11952546 DOI: 10.1101/2025.03.12.642906] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 04/02/2025]
Abstract
Significance Infrared neural stimulation (INS) has emerged as a potent neuromodulation technology, offering safe and focal stimulation with superior spatial recruitment profiles compared to conventional electrical methods. However, the neural dynamics induced by INS stimulation remain poorly understood. Elucidating these dynamics will help develop new INS stimulation paradigms and advance its clinical application. Aim In this study, we assessed the local network dynamics of INS entrainment in the auditory thalamocortical circuit using the chronically implanted rat model; our approach focused on measuring INS energy-based local field potential (LFP) recruitment induced by focal thalamocortical stimulation. We further characterized linear and nonlinear oscillatory LFP activity in response to single-pulse and periodic INS and performed spectral decomposition to uncover specific LFP band entrainment to INS. Finally, we examined spike-field transformations across the thalamocortical synapse using spike-LFP coherence coupling. Results We found that INS significantly increases LFP amplitude as a log-linear function of INS energy per pulse, primarily entraining to LFP β and γ bands with synchrony extending to 200 Hz in some cases. A subset of neurons demonstrated nonlinear, chaotic oscillations linked to information transfer across cortical circuits. Finally, we utilized spike-field coherences to correlate spike coupling to LFP frequency band activity and suggest an energy-dependent model of network activation resulting from INS stimulation. Conclusions We show that INS reliably drives robust network activity and can potently modulate cortical field potentials across a wide range of frequencies in a stimulus parameter-dependent manner. Based on these results, we propose design principles for developing full coverage, all-optical thalamocortical auditory neuroprostheses.
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Affiliation(s)
- Brandon S Coventry
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN 47907 USA
- Center for Implantable Devices, Purdue University, West Lafayette, IN 47907 USA
- Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN 47907 USA
| | - Cuong P Luu
- School of Medicine and Public Health, University of Wisconsin-Madison, Madison, WI 53907 USA
| | - Edward L Bartlett
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN 47907 USA
- Center for Implantable Devices, Purdue University, West Lafayette, IN 47907 USA
- Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN 47907 USA
- Department of Biological Sciences, Purdue University, West Lafayette, IN 47907 USA
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Yang R, Orser HD, Ludwig KA, Coventry BS. Field-Programmable Gate Array-Based Ultra-Low Power Discrete Fourier Transforms for Closed-Loop Neural Sensing. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.02.13.637868. [PMID: 39990505 PMCID: PMC11844513 DOI: 10.1101/2025.02.13.637868] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 02/25/2025]
Abstract
Digital implementations of discrete Fourier transforms (DFT) are a mainstay in feature assessment of recorded biopotentials, particularly in the quantification of biomarkers of neurological disease state for adaptive deep brain stimulation. Fast Fourier transform (FFT) algorithms and architectures present a substantial power demand from onboard batteries in implantable medical devices, necessitating the development of ultra-low power Fourier transform methods in resource-constrained environments. Numerous FFT architectures aim to optimize power and resource demand through computational efficiency; however, prioritizing the reduction of logic complexity at the cost of additional computations can be equally or more effective. This paper introduces a minimal architecture single-delay feedback discrete Fourier transform (mSDF-DFT) for use in ultra-low-power field programmable gate array applications and shows energy and power improvements over state-of-the-art FFT methods. We observe a 33% reduction in dynamic power and 4% reduction in resource utilization in a neural sensing application when compared to state-of-the-art FFT algorithms. While designed for use in closed-loop deep brain stimulation and medical device implementations, the mSDF-DFT is also easily extendable to any ultra-low power embedded application.
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Affiliation(s)
- Richard Yang
- Department of Biomedical Engineering, the Department of Computer Science, and the Wisconsin Institute for Translational Neuroengineering, University of Wisconsin-Madison, Madison WI 53701 USA
| | - Heather D. Orser
- Department of Electrical and Computer Engineering, University of St. Thomas, St. Paul MN 55105
| | - Kip A. Ludwig
- Department of Neurological Surgery, the Department of Surgery, and the Wisconsin Institute for Translational Neuroengineering, University of Wisconsin-Madison, Madison WI 53701 USA
| | - Brandon S. Coventry
- Department of Neurological Surgery, the Department of Biomedical Engineering, and the Wisconsin Institute for Translational Neuroengineering, University of Wisconsin-Madison, Madison WI 53701 USA
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Coventry BS, Bartlett EL. Practical Bayesian Inference in Neuroscience: Or How I Learned to Stop Worrying and Embrace the Distribution. eNeuro 2024; 11:ENEURO.0484-23.2024. [PMID: 38918054 PMCID: PMC11270157 DOI: 10.1523/eneuro.0484-23.2024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2023] [Revised: 05/17/2024] [Accepted: 06/18/2024] [Indexed: 06/27/2024] Open
Abstract
Typical statistical practices in the biological sciences have been increasingly called into question due to difficulties in the replication of an increasing number of studies, many of which are confounded by the relative difficulty of null significance hypothesis testing designs and interpretation of p-values. Bayesian inference, representing a fundamentally different approach to hypothesis testing, is receiving renewed interest as a potential alternative or complement to traditional null significance hypothesis testing due to its ease of interpretation and explicit declarations of prior assumptions. Bayesian models are more mathematically complex than equivalent frequentist approaches, which have historically limited applications to simplified analysis cases. However, the advent of probability distribution sampling tools with exponential increases in computational power now allows for quick and robust inference under any distribution of data. Here we present a practical tutorial on the use of Bayesian inference in the context of neuroscientific studies in both rat electrophysiological and computational modeling data. We first start with an intuitive discussion of Bayes' rule and inference followed by the formulation of Bayesian-based regression and ANOVA models using data from a variety of neuroscientific studies. We show how Bayesian inference leads to easily interpretable analysis of data while providing an open-source toolbox to facilitate the use of Bayesian tools.
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Affiliation(s)
- Brandon S Coventry
- Department of Neurological Surgery and the Wisconsin Institute for Translational Neuroengineering, University of Wisconsin-Madison, Madison, Wisconsin 53705
| | - Edward L Bartlett
- Weldon School of Biomedical Engineering, Department of Biological Sciences, and the Institute for Integrative Neuroscience, Purdue University, West Lafayette, Indiana 47907
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Coventry BS, Bartlett EL. Practical Bayesian Inference in Neuroscience: Or How I Learned To Stop Worrying and Embrace the Distribution. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2023.11.19.567743. [PMID: 38045416 PMCID: PMC10690186 DOI: 10.1101/2023.11.19.567743] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/05/2023]
Abstract
Typical statistical practices in the biological sciences have been increasingly called into question due to difficulties in replication of an increasing number of studies, many of which are confounded by the relative difficulty of null significance hypothesis testing designs and interpretation of p-values. Bayesian inference, representing a fundamentally different approach to hypothesis testing, is receiving renewed interest as a potential alternative or complement to traditional null significance hypothesis testing due to its ease of interpretation and explicit declarations of prior assumptions. Bayesian models are more mathematically complex than equivalent frequentist approaches, which have historically limited applications to simplified analysis cases. However, the advent of probability distribution sampling tools with exponential increases in computational power now allows for quick and robust inference under any distribution of data. Here we present a practical tutorial on the use of Bayesian inference in the context of neuroscientific studies. We first start with an intuitive discussion of Bayes' rule and inference followed by the formulation of Bayesian-based regression and ANOVA models using data from a variety of neuroscientific studies. We show how Bayesian inference leads to easily interpretable analysis of data while providing an open-source toolbox to facilitate the use of Bayesian tools.
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Affiliation(s)
- Brandon S Coventry
- Department of Neurological Surgery and the Wisconsin Institute for Translational Neuroengineering, University of Wisconsin-Madison, Madison, WI USA 53705
| | - Edward L Bartlett
- Weldon School of Biomedical Engineering, Department of Biological Sciences, and the Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN USA 47907
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Guo XJ, Zhao Z, Chang JQ, He LW, Su WN, Feng T, Zhao C, Xu M, Rao JS. Epidural combined optical and electrical stimulation induces high-specificity activation of target muscles in spinal cord injured rats. Front Neurosci 2023; 17:1282558. [PMID: 38027482 PMCID: PMC10667474 DOI: 10.3389/fnins.2023.1282558] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Accepted: 10/25/2023] [Indexed: 12/01/2023] Open
Abstract
Introduction Epidural electrical stimulation (EES) has been shown to improve motor dysfunction after spinal cord injury (SCI) by activating residual locomotor neural networks. However, the stimulation current often spreads excessively, leading to activation of non-target muscles and reducing the accuracy of stimulation regulation. Objectives Near-infrared nerve stimulation (nINS) was combined with EES to explore its regulatory effect on lower limb muscle activity in spinal-cord-transected rats. Methods In this study, stimulation electrodes were implanted into the rats' L3-L6 spinal cord segment with T8 cord transected. Firstly, a series of EES parameters (0.2-0.6 mA and 20-60 Hz) were tested to determine those that specifically regulate the tibialis anterior (TA) and medial gastrocnemius (MG). Subsequently, to determine the effect of combined optical and electrical stimulation, near-infrared laser with a wavelength of 808 nm was used to irradiate the L3-L6 spinal cord segment while EES was performed. The amplitude of electromyography (EMG), the specific activation intensity of the target muscle, and the minimum stimulus current intensity to induce joint movement (motor threshold) under a series of optical stimulation parameters (power: 0.0-2.0 W; pulse width: 0-10 ms) were investigated and analyzed. Results EES stimulation with 40 Hz at the L3 and L6 spinal cord segments specifically activated TA and MG, respectively. High stimulation intensity (>2 × motor threshold) activated non-target muscles, while low stimulation frequency (<20 Hz) produced intermittent contraction. Compared to electrical stimulation alone (0.577 ± 0.081 mV), the combined stimulation strategy could induce stronger EMG amplitude of MG (1.426 ± 0.365 mV) after spinal cord injury (p < 0.01). The combined application of nINS effectively decreased the EES-induced motor threshold of MG (from 0.237 ± 0.001 mA to 0.166 ± 0.028 mA, p < 0.001). Additionally, the pulse width (PW) of nINS had a slight impact on the regulation of muscle activity. The EMG amplitude of MG only increased by ~70% (from 3.978 ± 0.240 mV to 6.753 ± 0.263 mV) when the PW increased by 10-fold (from 1 to 10 ms). Conclusion The study demonstrates the feasibility of epidural combined electrical and optical stimulation for highly specific regulation of muscle activity after SCI, and provides a new strategy for improving motor dysfunction caused by SCI.
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Affiliation(s)
- Xiao-Jun Guo
- Beijing Key Laboratory for Biomaterials and Neural Regeneration, Beijing Advanced Innovation Center for Biomedical Engineering, School of Biological Science and Medical Engineering, Beihang University, Beijing, China
| | - Ziyi Zhao
- Department of Orthopedics, The First Medical Center of PLA General Hospital, Beijing, China
| | - Jia-Qi Chang
- Smart Fluid Equipment and Manufacture Lab, School of Automation Science and Electrical Engineering, Beihang Univeristy, Beijing, China
| | - Le-Wei He
- Beijing Key Laboratory for Biomaterials and Neural Regeneration, Beijing Advanced Innovation Center for Biomedical Engineering, School of Biological Science and Medical Engineering, Beihang University, Beijing, China
| | - Wen-Nan Su
- Beijing Key Laboratory for Biomaterials and Neural Regeneration, Beijing Advanced Innovation Center for Biomedical Engineering, School of Biological Science and Medical Engineering, Beihang University, Beijing, China
| | - Ting Feng
- Beijing Key Laboratory for Biomaterials and Neural Regeneration, Beijing Advanced Innovation Center for Biomedical Engineering, School of Biological Science and Medical Engineering, Beihang University, Beijing, China
| | - Can Zhao
- Institute of Rehabilitation Engineering, China Rehabilitation Science Institute, Beijing, China
| | - Meng Xu
- Department of Orthopedics, The First Medical Center of PLA General Hospital, Beijing, China
| | - Jia-Sheng Rao
- Beijing Key Laboratory for Biomaterials and Neural Regeneration, Beijing Advanced Innovation Center for Biomedical Engineering, School of Biological Science and Medical Engineering, Beihang University, Beijing, China
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Coventry BS, Lawlor GL, Bagnati CB, Krogmeier C, Bartlett EL. Spatially specific, closed-loop infrared thalamocortical deep brain stimulation. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.10.04.560859. [PMID: 37904955 PMCID: PMC10614743 DOI: 10.1101/2023.10.04.560859] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/01/2023]
Abstract
Deep brain stimulation (DBS) is a powerful tool for the treatment of circuitopathy-related neurological and psychiatric diseases and disorders such as Parkinson's disease and obsessive-compulsive disorder, as well as a critical research tool for perturbing neural circuits and exploring neuroprostheses. Electrically-mediated DBS, however, is limited by the spread of stimulus currents into tissue unrelated to disease course and treatment, potentially causing undesirable patient side effects. In this work, we utilize infrared neural stimulation (INS), an optical neuromodulation technique that uses near to mid-infrared light to drive graded excitatory and inhibitory responses in nerves and neurons, to facilitate an optical and spatially constrained DBS paradigm. INS has been shown to provide spatially constrained responses in cortical neurons and, unlike other optical techniques, does not require genetic modification of the neural target. We show that INS produces graded, biophysically relevant single-unit responses with robust information transfer in thalamocortical circuits. Importantly, we show that cortical spread of activation from thalamic INS produces more spatially constrained response profiles than conventional electrical stimulation. Owing to observed spatial precision of INS, we used deep reinforcement learning for closed-loop control of thalamocortical circuits, creating real-time representations of stimulus-response dynamics while driving cortical neurons to precise firing patterns. Our data suggest that INS can serve as a targeted and dynamic stimulation paradigm for both open and closed-loop DBS.
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Affiliation(s)
- Brandon S Coventry
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN USA
- Center for Implantable Devices and the Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN USA
| | - Georgia L Lawlor
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN USA
- Center for Implantable Devices and the Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN USA
| | - Christina B Bagnati
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN USA
| | - Claudia Krogmeier
- Department of Computer Graphics Technology, Purdue University, West Lafayette, IN USA
| | - Edward L Bartlett
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN USA
- Center for Implantable Devices and the Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN USA
- Department of Biological Sciences, Purdue University, West Lafayette, IN USA
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Cury J, Vande Perre L, Smets H, Stumpp L, Vespa S, Vanhoestenberghe A, Doguet P, Delbeke J, El Tahry R, Gorza SP, Nonclercq A. Infrared neurostimulation in ex-vivorat sciatic nerve using 1470 nm wavelength. J Neural Eng 2021; 18. [PMID: 33770780 DOI: 10.1088/1741-2552/abf28f] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2020] [Accepted: 03/26/2021] [Indexed: 12/22/2022]
Abstract
Objective.To design and implement a setup forex-vivooptical stimulation for exploring the effect of several key parameters (optical power and pulse duration), activation features (threshold, spatial selectivity) and recovery characteristics (repeated stimuli) in peripheral nerves.Approach.A nerve chamber allowing ex-vivo electrical and optical stimulation was designed and built. A 1470 nm light source was chosen to stimulate the nerve. A photodiode module was implemented for synchronization of the electrical and optical channels.Main results. Compound neural action potentials (CNAPs) were successfully generated with infrared light pulses of 200-2000µs duration and power in the range of 3-10 W. These parameters determine a radiant exposure for stimulation in the range 1.59-4.78 J cm-2. Recruitment curves were obtained by increasing durations at a constant power level. Neural activation threshold is reached at a mean radiant exposure of 3.16 ± 0.68 J cm-2and mean pulse energy of 3.79 ± 0.72 mJ. Repetition rates of 2-10 Hz have been explored. In eight out of ten sciatic nerves (SNs), repeated light stimuli induced a sensitization effect in that the CNAP amplitude progressively grows, representing an increasing number of recruited fibres. In two out of ten SNs, CNAPs were composed of a succession of peaks corresponding to different conduction velocities.Significance.The reported sensitization effect could shed light on the mechanism underlying infrared neurostimulation. Our results suggest that, in sharp contrast with electrical stimuli, optical pulses could recruit slow fibres early on. This more physiological order of recruitment opens the perspective for specific neuromodulation of fibre population who remained poorly accessible until now. Short high-power light pulses at wavelengths below 1.5µm offer interesting perspectives for neurostimulation.
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Affiliation(s)
- Joaquin Cury
- Bio, Electro and Mechanical Systems (BEAMS), Université libre de Bruxelles, Brussels, Belgium.,Opera Photonics, Université libre de Bruxelles, Brussels, Belgium
| | - Louis Vande Perre
- Bio, Electro and Mechanical Systems (BEAMS), Université libre de Bruxelles, Brussels, Belgium
| | - Hugo Smets
- Bio, Electro and Mechanical Systems (BEAMS), Université libre de Bruxelles, Brussels, Belgium
| | - Lars Stumpp
- Institute of Neurosciences (IONS), Université Catholique de Louvain, Belgium-Cliniques Universitaires Saint Luc, Department of Neurology, Brussels, Belgium
| | - Simone Vespa
- Institute of Neurosciences (IONS), Université Catholique de Louvain, Belgium-Cliniques Universitaires Saint Luc, Department of Neurology, Brussels, Belgium
| | - Anne Vanhoestenberghe
- Aspire Centre for Rehabilitation Engineering and Assistive Technology, University College London, London, United Kingdom
| | | | - Jean Delbeke
- Institute of Neurosciences (IONS), Université Catholique de Louvain, Belgium-Cliniques Universitaires Saint Luc, Department of Neurology, Brussels, Belgium
| | - Riëm El Tahry
- Institute of Neurosciences (IONS), Université Catholique de Louvain, Belgium-Cliniques Universitaires Saint Luc, Department of Neurology, Brussels, Belgium
| | | | - Antoine Nonclercq
- Bio, Electro and Mechanical Systems (BEAMS), Université libre de Bruxelles, Brussels, Belgium
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