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Schwock F, Bloch J, Khateeb K, Zhou J, Atlas L, Yazdan-Shahmorad A. Inferring Neural Communication Dynamics from Field Potentials Using Graph Diffusion Autoregression. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.02.26.582177. [PMID: 38464147 PMCID: PMC10925120 DOI: 10.1101/2024.02.26.582177] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/12/2024]
Abstract
Estimating dynamic network communication is attracting increased attention, spurred by rapid advancements in multi-site neural recording technologies and efforts to better understand cognitive processes. Yet, traditional methods, which infer communication from statistical dependencies among distributed neural recordings, face core limitations: they do not model neural interactions in a biologically plausible way, neglect spatial information from the recording setup, and yield predominantly static estimates that cannot capture rapid changes in the brain. To address these issues, we introduce a graph diffusion autoregressive model. Designed for distributed field potential recordings, our model combines vector autoregression with a network communication process to produce a high-resolution communication signal. We successfully validated the model on simulated neural activity and recordings from subdural and intracortical micro-electrode arrays placed in macaque sensorimotor cortex demonstrating its ability to describe rapid communication dynamics induced by optogenetic stimulation, changes in resting state communication, and the trial-by-trial variability during a reach task.
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Affiliation(s)
- Felix Schwock
- Department of Electrical and Computer Engineering, University of Washington, Seattle, WA, USA
- Primate Research Center, Seattle, WA, USA
| | - Julien Bloch
- Department of Bioengineering, University of Washington, Seattle, WA, USA. Washington National
- Primate Research Center, Seattle, WA, USA
| | - Karam Khateeb
- Department of Bioengineering, University of Washington, Seattle, WA, USA. Washington National
- Primate Research Center, Seattle, WA, USA
| | - Jasmine Zhou
- Department of Bioengineering, University of Washington, Seattle, WA, USA. Washington National
- Primate Research Center, Seattle, WA, USA
| | - Les Atlas
- Department of Electrical and Computer Engineering, University of Washington, Seattle, WA, USA
| | - Azadeh Yazdan-Shahmorad
- Department of Electrical and Computer Engineering, University of Washington, Seattle, WA, USA
- Department of Bioengineering, University of Washington, Seattle, WA, USA. Washington National
- Primate Research Center, Seattle, WA, USA
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Grani F, Soto Sanchez C, Farfan FD, Alfaro A, Grima MD, Rodil Doblado A, Fernandez E. Time stability and connectivity analysis with an intracortical 96-channel microelectrode array inserted in human visual cortex. J Neural Eng 2022; 19. [PMID: 35817011 DOI: 10.1088/1741-2552/ac801d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 07/11/2022] [Indexed: 11/12/2022]
Abstract
OBJECTIVE Microstimulation via electrodes that penetrate the visual cortex creates visual perceptions called phosphenes. Besides providing electrical stimulation to induce perceptions, each electrode can be used to record the brain signals from the cortex region under the electrode which contains brain state information. Since the future visual prosthesis interfaces will be implanted chronically in the visual cortex of blind people, it is important to study the long-term stability of the signals acquired from the electrodes. Here, we studied the changes over time and the repercussions of electrical stimulation on the brain signals acquired with an intracortical 96-channel microelectrode array implanted in the visual cortex of a blind volunteer for 6 months. APPROACH We used variance, power spectral density, correlation, coherence, and phase coherence to study the brain signals acquired in resting condition before and after the administration of electrical stimulation during a period of 6 months. MAIN RESULTS Variance and power spectral density up to 750 Hz do not show any significant trend in the 6 months, but correlation coherence and phase coherence significantly decrease over the implantation time and increase after electrical stimulation. SIGNIFICANCE The stability of variance and power spectral density in time is important for long-term clinical applications based on the intracortical signals collected by the electrodes. The decreasing trends of correlation, coherence, and phase coherence might be related to plasticity changes in the visual cortex due to electrical microstimulation.
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Affiliation(s)
- Fabrizio Grani
- Universidad Miguel Hernandez de Elche, Avinguda de la Universitat d'Elx, Elche, 03206, SPAIN
| | - Cristina Soto Sanchez
- Universidad Miguel Hernandez de Elche, Avinguda de la Universitat d'Elx, Elche, 03206, SPAIN
| | - Fernando Daniel Farfan
- Departmento de Bioingenieria Fac de Ciencias Exactas y Technologia, Universidad Nacional de Tucuman, Av. Independencia 1800, San Miguel de Tucumán, Tucumán, 4000, ARGENTINA
| | - Arantxa Alfaro
- Institute of Bioengineering, Universidad Miguel Hernandez de Elche, Fac. Medicina, San Juan, Alicante , 03550, SPAIN
| | - Maria Dolores Grima
- Universidad Miguel Hernandez de Elche, Avinguda de la Universitat d'Elx, ELCHE, Elche, 03206, SPAIN
| | - Alfonso Rodil Doblado
- Universidad Miguel Hernandez de Elche, Avinguda de la Universitat d'Elx, Elche, 03206, SPAIN
| | - Eduardo Fernandez
- Institute of Bioengineering, Universidad Miguel Hernandez de Elche, Unidad de Neuroingeniería Biomédica, Avda de la Universidad s/n, Elche, ALicante, 03202, SPAIN
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Griggs DJ, Bloch J, Fisher S, Ojemann WKS, Coubrough KM, Khateeb K, Chu M, Yazdan-Shahmorad A. Demonstration of an Optimized Large-scale Optogenetic Cortical Interface for Non-human Primates. ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL INTERNATIONAL CONFERENCE 2022; 2022:3081-3084. [PMID: 36086548 DOI: 10.1109/embc48229.2022.9871332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Optogenetics is a powerful neuroscientific tool which allows neurons to be modulated by optical stimulation. Despite widespread optogenetic experimentation in small animal models, optogenetics in non-human primates (NHPs) remains a niche field, particularly at the large scales necessary for multi-regional neural research. We previously published a large-scale, chronic optogenetic cortical interface for NHPs which was successful but came with a number of limitations. In this work, we present an optimized interface which improves upon the stability and scale of our previous interface while using more easily replicable methods to increase our system's availability to the scientific community. Specifically, we (1) demonstrate the long-term (~3 months) optical access to the brain achievable using a commercially-available transparent artificial dura with embedded electrodes, (2) showcase large-scale optogenetic expression achievable with simplified (magnetic resonance-free) surgical techniques, and (3) effectively modulated the expressing areas at large scales (~1 cm2) by light emitting diode (LED) arrays assembled in-house.
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Griggs DJ, Khateeb K, Zhou J, Liu T, Wang R, Yazdan-Shahmorad A. Multi-modal artificial dura for simultaneous large-scale optical access and large-scale electrophysiology in non-human primate cortex. J Neural Eng 2021; 18:10.1088/1741-2552/abf28d. [PMID: 33770770 PMCID: PMC8523212 DOI: 10.1088/1741-2552/abf28d] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2021] [Accepted: 03/26/2021] [Indexed: 11/11/2022]
Abstract
Objective.Non-human primates (NHPs) are critical for development of translational neural technologies because of their neurological and neuroanatomical similarities to humans. Large-scale neural interfaces in NHPs with multiple modalities for stimulation and data collection poise us to unveil network-scale dynamics of both healthy and unhealthy neural systems. We aim to develop a large-scale multi-modal interface for NHPs for the purpose of studying large-scale neural phenomena including neural disease, damage, and recovery.Approach.We present a multi-modal artificial dura (MMAD) composed of flexible conductive traces printed into transparent medical grade polymer. Our MMAD provides simultaneous neurophysiological recordings and optical access to large areas of the cortex (∼3 cm2) and is designed to mitigate photo-induced electrical artifacts. The MMAD is the centerpiece of the interfaces we have designed to support electrocorticographic recording and stimulation, cortical imaging, and optogenetic experiments, all at the large-scales afforded by the brains of NHPs. We performed electrical and optical experiments bench-side andin vivowith macaques to validate the utility of our MMAD.Main results.Using our MMAD we present large-scale electrocorticography from sensorimotor cortex of three macaques. Furthermore, we validated surface electrical stimulation in one of our animals. Our bench-side testing showed up to 90% reduction of photo-induced artifacts with our MMAD. The transparency of our MMAD was confirmed both via bench-side testing (87% transmittance) and viain vivoimaging of blood flow from the underlying microvasculature using optical coherence tomography angiography.Significance.Our results indicate that our MMAD supports large-scale electrocorticography, large-scale cortical imaging, and, by extension, large-scale optical stimulation. The MMAD prepares the way for both acute and long-term chronic experiments with complimentary data collection and stimulation modalities. When paired with the complex behaviors and cognitive abilities of NHPs, these assets prepare us to study large-scale neural phenomena including neural disease, damage, and recovery.
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Affiliation(s)
- Devon J Griggs
- Department of Electrical and Computer Engineering, University of Washington, Seattle, WA, United States of America
- Washington National Primate Research Center, Seattle, WA, United States of America
| | - Karam Khateeb
- Washington National Primate Research Center, Seattle, WA, United States of America
- Department of Bioengineering, University of Washington, Seattle, WA, United States of America
| | - Jasmine Zhou
- Washington National Primate Research Center, Seattle, WA, United States of America
- Department of Bioengineering, University of Washington, Seattle, WA, United States of America
| | - Teng Liu
- Department of Bioengineering, University of Washington, Seattle, WA, United States of America
| | - Ruikang Wang
- Department of Bioengineering, University of Washington, Seattle, WA, United States of America
- Department of Ophthalmology, University of Washington Medicine, Seattle, WA, United States of America
| | - Azadeh Yazdan-Shahmorad
- Department of Electrical and Computer Engineering, University of Washington, Seattle, WA, United States of America
- Washington National Primate Research Center, Seattle, WA, United States of America
- Department of Bioengineering, University of Washington, Seattle, WA, United States of America
- Graduate Program in Neuroscience, University of Washington, Seattle, WA, United States of America
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