Interfaces neuronales CMOS haute résolution pour l'électrophysiologie et l'optogénétique en boucle fermée

L’avenir de la recherche sur les maladies du cerveau repose sur le développement de nouvelles technologies qui permettront de comprendre comment cet organe si complexe traite, intègre et transfère l’information. Parmi celles-ci, l’optogénétique est une technologie révolutionnaire qui permet d’utiliser de la lumière afin d’activer sélectivement les neurones du cortex d’animaux transgéniques pour observer leur effet dans un vaste réseau biologique. Ce cadre expérimental repose typiquement sur l’observation de l’activité neuronale de souris transgéniques, car elles peuvent exprimer une grande variété de gènes et de maladies et qu’elles sont peu couteuses. Toutefois, la plupart des appareils de mesure ou de stimulation optogénétique disponible ne sont pas appropriés, car ils sont câblés, trop lourds et/ou trop simplistes. Malheureusement, peu de systèmes sans fil existent, et ces derniers sont grandement limités par la bande passante requise pour transmettre les données neuronales, et ils ne fournissent pas de stimulation optogénétique multicanal afin de stimuler et observer plusieurs régions du cerveau. Dans les dispositifs actuels, l’interprétation des données neuronales est effectuée ex situ, alors que la recherche bénéficierait grandement de systèmes sans fil assez intelligents pour interpréter et stimuler les neurones en boucle fermée, in situ. Le but de ce projet de recherche est de concevoir des circuits analogiques-numériques d’acquisition et de traitement des signaux neuronaux, des algorithmes d’analyse et de traitement de ces signaux et des systèmes electro-optiques miniatures et sans fil pour : i) Mener des expériences combinant l’enregistrement neuronal et l’optogénétique multicanal haute résolution avec des animaux libres de leurs mouvements. ii) Mener des expériences optogénétiques synchronisées avec l’observation, c.-à-d. en boucle fermée, chez des animaux libres de leurs mouvements. iii) Réduire la taille, le poids et la consommation énergétique des systèmes optogénétiques sans fil afin de minimiser l’impact de la recherche chez de petits animaux. Ce projet est en 3 phases, et ses principales contributions ont été rapportées dans dix conférences internationales (ISSCC, ISCAS, EMBC, etc.) et quatre articles de journaux publiés ou soumis, ainsi que dans un brevet et deux divulgations. La conception d’un système optogénétique haute résolution pose plusieurs défis importants. Notamment, puisque les signaux neuronaux ont un contenu fréquentiel élevé (_10 kHz), le nombre de canaux sous observation est limité par la bande passante des transmetteurs sans fil (2-4 canaux en général). Ainsi, la première phase du projet a visé le développement d’algorithmes de compression des signaux neuronaux et leur intégration dans un système optogénétique sans fil miniature et léger (2.8 g) haute résolution possédant 32 canaux d’acquisition et 32 canaux de stimulation optique. Le système détecte, compresse et transmet les formes d’onde des potentiels d’action (PA) produits par les neurones avec un field programmable gate array (FPGA) embarqué à faible consommation énergétique. Ce processeur implémente un algorithme de détection des PAs basé sur un seuillage adaptatif, ce qui permet de compresser les signaux en transmettant seulement les formes détectées. Chaque PA est davantage compressé par une transformée en ondelette discrète (DWT) de type Symmlet-2 suivie d’une technique de discrimination et de requantification dynamique des coefficients. Les résultats obtenus démontrent que cet algorithme est plus robuste que les méthodes existantes tout en permettant de reconstruire les signaux compressés avec une meilleure qualité (SNDR moyen de 25 dB _ 5% pour un taux de compression (CR) de 4.2). Avec la détection, des CR supérieurs à 500 sont rapportés lors de la validation in vivo. L’utilisation de composantes commerciales dans des systèmes optogénétiques sans fil augmentela taille et la consommation énergétique, en plus de ne pas être optimisée pour cette application. La seconde phase du projet a permis de concevoir un système sur puce (SoC) complementary metal oxide semiconductor (CMOS) pour faire de l’enregistrement neuronal et de optogénétique multicanal, permettant de réduire significativement la taille et la consommation énergétique comparativement aux alternatives commerciales. Ceci est une contribution importante, car c’est la première puce à être doté de ces deux fonctionnalités. Le SoC possède 10 canaux d’enregistrement et 4 canaux de stimulation optogénétique. La conception du bioamplificateur inclut une bande passante programmable (0.5 Hz - 7 kHz) et un faible bruit referré à l’entré (IRN de 3.2 μVrms), ce qui permet de cibler différents types de signaux biologiques (PA, LFP, etc.). Le convertisseur analogique numérique (ADC) de type Delta- Sigma (DS) MASH 1-1-1 est conçu pour fonctionner de faibles taux de sur-échantillonnage (OSR _50) pour réduire sa consommation et possède une résolution programmable (ENOB de 9.75 Bits avec un OSR de 25). Cet ADC exploite une nouvelle technique réduisant la taille du circuit en soustrayant la sortie de chaque branche du DS dans le domaine numérique, comparativement à la méthode analogique classique. La consommation totale d’un canal d’enregistrement est de 11.2 μW. Le SoC implémente un nouveau circuit de stimulation optique basé sur une source de courant de type cascode avec rétroaction, ce qui permet d’accommoder une large gamme de LED et de tensions de batterie comparativement aux circuits existants. Le SoC est intégré dans un système optogénétique sans fil et validé in vivo. À ce jour et en excluant ce projet, aucun système sans-fil ne fait de l’optogénétique en boucle fermée simultanément au suivi temps réel de l’activité neuronale. Une contribution importante de ce travail est d’avoir développé le premier système optogénétique multicanal qui est capable de fonctionner en boucle fermée et le premier à être validé lors d’expériences in vivo impliquant des animaux libres de leurs mouvements. Pour ce faire, la troisième phase du projet a visé la conception d’un SoC CMOS numérique, appelé neural decoder integrated circuit (ND-IC). Le ND-IC et le SoC développé lors de la phase 2 ont été intégrés dans un système optogénétique sans fil. Le ND-IC possède 3 modules : 1) le détecteur de PA adaptatif, 2) le module de compression possédant un nouvel arbre de tri pour discriminer les coefficients, et 3) le module de classement automatique des PA qui réutilise les données générées par le module de détection et de compression pour réduire sa complexité. Un lien entre un canal d’enregistrement et un canal de stimulation est établi selon l’association de chaque PA à un neurone, grâce à la classification, et selon l’activité de ce neurone dans le temps. Le ND-IC consomme 56.9 μW et occupe 0.08 mm2 par canal. Le système pèse 1.05 g, occupe un volume de 1.12 cm3, possède une autonomie de 3h, et est validé in vivo.The future of brain research lies in the development of new technologies that will help understand how this complex organ processes, integrates and transfers information. Among these, optogenetics is a recent technology that allows the use of light to selectively activate neurons in the cortex of transgenic animals to observe their effect in a large biological network. This experimental setting is typically based on observing the neuronal activity of transgenic mice, as they express a wide variety of genes and diseases, while being inexpensive. However, most available neural recording or optogenetic devices are not suitable, because they are hard-wired, too heavy and/or too simplistic. Unfortunately, few wireless systems exist, and they are greatly limited by the required bandwidth to transmit neural data, while not providing simultaneous multi-channel neural recording and optogenetic, a must for stimulating and observing several areas of the brain. In current devices, the analysis of the neuronal data is performed ex situ, while the research would greatly benefit from wireless systems that are smart enough to interpret and stimulate the neurons in closed-loop, in situ. The goal of this project is to design analog-digital circuits for acquisition and processing of neural signals, algorithms for analysis and processing of these signals and miniature electrooptical wireless systems for: i) Conducting experiments combining high-resolution multi-channel neuronal recording and high-resolution multi-channel optogenetics with freely-moving animals. ii) Conduct optogenetic experiments synchronized with the neural recording, i.e. in closed loop, with freely-moving animals. iii) Increase the resolution while reducing the size, weight and energy consumption of the wireless optogenetic systems to minimize the impact of research with small animals. This project is in 3 phases, and its main contributions have been reported in ten conferences (ISSCC, ISCAS, EMBC, etc.) and four published journal papers, or submitted, as well as in a patent and two disclosures. The design of a high resolution optogenetic system poses several challenges. In particular, since the neuronal signals have a high frequency content (10 kHz), the number of chanv nels under observation is limited by the bandwidth of the wireless transmitters (2-4 channels in general). Thus, the first phase of the project focused on the development of neural signal compression algorithms and their integration into a high-resolution miniature and lightweight wireless optogenetics system (2.8g), having 32 recording channels and 32 optical stimulation channels. This system detects, compresses and transmits the waveforms of the signals produced by the neurons, i.e. action potentials (AP), in real time, via an embedded low-power field programmable gate array (FPGA). This processor implements an AP detector algorithm based on adaptive thresholding, which allows to compress the signals by transmitting only the detected waveforms. Each AP is further compressed by a Symmlet-2 discrete wavelet transform (DWT) followed dynamic discrimination and requantification of the DWT coefficients, making it possible to achieve high compression ratios with a good reconstruction quality. Results demonstrate that this algorithm is more robust than existing approach, while allowing to reconstruct the compressed signals with better quality (average SNDR of 25 dB 5% for a compression ratio (CR) of 4.2). With detection, CRs greater than 500 are reported during the in vivo validation. The use of commercial components in wireless optogenetic systems increases the size and power consumption, while not being optimized for this application. The second phase of the project consisted in designing a complementary metal oxide semiconductor (CMOS) system-on-chip (SoC) for neural recording and multi-channel optogenetics, which significantly reduces the size and energy consumption compared to commercial alternatives. This is important contribution, since it’s the first chip to integrate both features. This SoC has 10 recording channels and 4 optogenetic stimulation channels. The bioamplifier design includes a programmable bandwidth (0.5 Hz -7 kHz) and a low input-referred noise (IRN of 3.2 μVrms), which allows targeting different biological signals (AP, LFP, etc.). The Delta-Sigma (DS) MASH 1-1-1 low-power analog-to-digital converter (ADC) is designed to work with low OSR (50), as to reduce its power consumption, and has a programmable resolution (ENOB of 9.75 bits with an OSR of 25). This ADC uses a new technique to reduce its circuit size by subtracting the output of each DS branch in the digital domain, rather than in the analog domain, as done conventionally. A recording channel, including the bioamplifier, the DS and the decimation filter, consumes 11.2 μW. Optical stimulation is performed with an on-chip LED driver using a regulated cascode current source with feedback, which accommodates a wide range of LED parameters and battery voltages. The SoC is integrated into a wireless optogenetic platform and validated in vivo.To date and excluding this project, no wireless system is making closed-loop optogenetics simultaneously to real-time monitoring of neuronal activity. An important contribution of this work is to have developed the first multi-channel optogenetic system that is able to work in closed-loop, and the first to be validated during in vivo experiments involving freely-moving animals. To do so, the third phase of the project aimed to design a digital CMOS chip, called neural decoder integrated circuit (ND-IC). The ND-IC and the SoC developed in Phase 2 are integrated within a wireless optogenetic system. The ND-IC has 3 main cores: 1) the adaptive AP detector core, 2) the compression core with a new sorting tree for discriminating the DWT coefficients, and 3 ) the AP automatic classification core that reuses the data generated by the detection and compression cores to reduce its complexity. A link between a recording channel and a stimulation channel is established according to the association of each AP with a neuron, thanks to the classification, and according to the bursting activity of this neuron. The ND-IC consumes 56.9 μW and occupies 0.08 mm2 per channel. The system weighs 1.05 g, occupies a volume of 1.12 cm3, has an autonomy of 3h, and is validated in vivo

Biointegrated and wirelessly powered implantable brain devices: a review

Implantable neural interfacing devices have added significantly to neural engineering by introducing the low-frequency oscillations of small populations of neurons known as local field potential as well as high-frequency action potentials of individual neurons. Regardless of the astounding progression as of late, conventional neural modulating system is still incapable to achieve the desired chronic in vivo implantation. The real constraint emerges from mechanical and physical diffierences between implants and brain tissue that initiates an inflammatory reaction and glial scar formation that reduces the recording and stimulation quality. Furthermore, traditional strategies consisting of rigid and tethered neural devices cause substantial tissue damage and impede the natural behaviour of an animal, thus hindering chronic in vivo measurements. Therefore, enabling fully implantable neural devices, requires biocompatibility, wireless power/data capability, biointegration using thin and flexible electronics, and chronic recording properties. This paper reviews biocompatibility and design approaches for developing biointegrated and wirelessly powered implantable neural devices in animals aimed at long-term neural interfacing and outlines current challenges toward developing the next generation of implantable neural devices

An integrated bidirectional multi-channel opto-electro arbitrary waveform stimulator for treating motor neurone disease

This paper presents a prototype integrated bidirectional stimulator ASIC capable of mixed opto-electro stimulation and electrophysiological signal recording. The development is part of the research into a fully implantable device for treating motor neurone disease using optogenetics and stem cell technology. The ASIC consists of 4 stimulator units, each featuring 16-channel optical and electrical stimulation using arbitrary current waveforms with an amplitude up to 16 mA and a frequency from 1.5 Hz to 50 kHz, and a recording front-end with a programmable bandwidth of 1 Hz to 4 kHz, and a programmable amplifier gain up to 74 dB. The ASIC was implemented in a 0.18μm CMOS technology. Simulated performance in stimulation and recording is presented

A multichannel wireless sEMG sensor endowing a 0.13 μm CMOS mixed-signal SoC

This paper presents a wireless multichannel surface electromyography (sEMG) sensor which features a custom 0.13μm CMOS mixed-signal system-on-chip (SoC) analog frontend circuit. The proposed sensor includes 10 sEMG recording channels with tunable bandwidth (BW) and analog-to-digital converter (ADC) resolution. The SoC includes 10x bioamplifiers, 10x 3 rd order ΔΣ MASH 1-1-1 ADC, and 10x on-chip decimation filters (DF). This SoC provides the sEMG samples data through a serial peripheral interface (SPI) bus to a microcontroller unit (MCU) that then transfers the data to a wireless transceiver. We report sEMG waveforms acquired using a custom multichannel electrode module, and a comparison with a commercial grade system. Results show that the proposed integrated wireless SoC-based system compares well with the commercial grade sEMG recording system. The sensor has an input-referred noise of 2.5 μVrms (BW of 10-500 Hz), an input-dynamic range of 6 mVpp, a programmable sampling rate of 2 ksps, for sEMG, while consuming only 7.1 μW/Ch for the SoC (w/ ADC & DF) and 21.8 mW of power for the sensor (Transceiver, MCU, etc.). The system lies on a 1.5 × 2.0 cm 2 printed circuit board and weights <; 1 g

Outan: An On-Head System for Driving micro-LED Arrays Implanted in Freely Moving Mice

In the intact brain, neural activity can be recorded using sensing electrodes and manipulated using light stimulation. Silicon probes with integrated electrodes and micro-LEDs enable the detection and control of neural activity using a single implanted device. Miniaturized solutions for recordings from small freely moving animals are commercially available, but stimulation is driven by large, stationary current sources. We designed and fabricated a current source chip and integrated it into a headstage PCB that weighs 1.37 g. The proposed system provides 10-bit resolution current control for 32 channels, driving micro-LEDs with up to 4.6 V and sourcing up to 0.9 mA at a refresh rate of 5 kHz per channel. When calibrated against a micro-LED probe, the system allows linear control of light output power, up to 10 micro-W per micro-LED. To demonstrate the capabilities of the system, synthetic sequences of neural spiking activity were produced by driving multiple micro-LEDs implanted in the hippocampal CA1 area of a freely moving mouse. The high spatial, temporal, and amplitude resolution of the system provides a rich variety of stimulation patterns. Combined with commercially available sampling headstages, the system provides an easy to use back-end, fully utilizing the bi-directional potential of integrated opto-electronic arrays.Comment: 11 pages, 9 figure

Bidirectional Neural Interface Circuits with On-Chip Stimulation Artifact Reduction Schemes

Bidirectional neural interfaces are tools designed to “communicate” with the brain via recording and modulation of neuronal activity. The bidirectional interface systems have been adopted for many applications. Neuroscientists employ them to map neuronal circuits through precise stimulation and recording. Medical doctors deploy them as adaptable medical devices which control therapeutic stimulation parameters based on monitoring real-time neural activity. Brain-machine-interface (BMI) researchers use neural interfaces to bypass the nervous system and directly control neuroprosthetics or brain-computer-interface (BCI) spellers. In bidirectional interfaces, the implantable transducers as well as the corresponding electronic circuits and systems face several challenges. A high channel count, low power consumption, and reduced system size are desirable for potential chronic deployment and wider applicability. Moreover, a neural interface designed for robust closed-loop operation requires the mitigation of stimulation artifacts which corrupt the recorded signals. This dissertation introduces several techniques targeting low power consumption, small size, and reduction of stimulation artifacts. These techniques are implemented for extracellular electrophysiological recording and two stimulation modalities: direct current stimulation for closed-loop control of seizure detection/quench and optical stimulation for optogenetic studies. While the two modalities differ in their mechanisms, hardware implementation, and applications, they share many crucial system-level challenges. The first method aims at solving the critical issue of stimulation artifacts saturating the preamplifier in the recording front-end. To prevent saturation, a novel mixed-signal stimulation artifact cancellation circuit is devised to subtract the artifact before amplification and maintain the standard input range of a power-hungry preamplifier. Additional novel techniques have been also implemented to lower the noise and power consumption. A common average referencing (CAR) front-end circuit eliminates the cross-channel common mode noise by averaging and subtracting it in analog domain. A range-adapting SAR ADC saves additional power by eliminating unnecessary conversion cycles when the input signal is small. Measurements of an integrated circuit (IC) prototype demonstrate the attenuation of stimulation artifacts by up to 42 dB and cross-channel noise suppression by up to 39.8 dB. The power consumption per channel is maintained at 330 nW, while the area per channel is only 0.17 mm2. The second system implements a compact headstage for closed-loop optogenetic stimulation and electrophysiological recording. This design targets a miniaturized form factor, high channel count, and high-precision stimulation control suitable for rodent in-vivo optogenetic studies. Monolithically integrated optoelectrodes (which include 12 µLEDs for optical stimulation and 12 electrical recording sites) are combined with an off-the-shelf recording IC and a custom-designed high-precision LED driver. 32 recording and 12 stimulation channels can be individually accessed and controlled on a small headstage with dimensions of 2.16 x 2.38 x 0.35 cm and mass of 1.9 g. A third system prototype improves the optogenetic headstage prototype by furthering system integration and improving power efficiency facilitating wireless operation. The custom application-specific integrated circuit (ASIC) combines recording and stimulation channels with a power management unit, allowing the system to be powered by an ultra-light Li-ion battery. Additionally, the µLED drivers include a high-resolution arbitrary waveform generation mode for shaping of µLED current pulses to preemptively reduce artifacts. A prototype IC occupies 7.66 mm2, consumes 3.04 mW under typical operating conditions, and the optical pulse shaping scheme can attenuate stimulation artifacts by up to 3x with a Gaussian-rise pulse rise time under 1 ms.PHDElectrical EngineeringUniversity of Michigan, Horace H. Rackham School of Graduate Studieshttps://deepblue.lib.umich.edu/bitstream/2027.42/147674/1/mendrela_1.pd

A wireless electro-optic platform for multimodal electrophysiology and optogenetics in freely moving rodents

This paper presents the design and the utilization of a wireless electro-optic platform to perform simultaneous multimodal electrophysiological recordings and optogenetic stimulation in freely moving rodents. The developed system can capture neural action potentials (AP), local field potentials (LFP) and electromyography (EMG) signals with up to 32 channels in parallel while providing four optical stimulation channels. The platform is using commercial off-the-shelf components (COTS) and a low-power digital field-programmable gate array (FPGA), to perform digital signal processing to digitally separate in real time the AP, LFP and EMG while performing signal detection and compression for mitigating wireless bandwidth and power consumption limitations. The different signal modalities collected on the 32 channels are time-multiplexed into a single data stream to decrease power consumption and optimize resource utilization. The data reduction strategy is based on signal processing and real-time data compression. Digital filtering, signal detection, and wavelet data compression are used inside the platform to separate the different electrophysiological signal modalities, namely the local field potentials (1–500 Hz), EMG (30–500 Hz), and the action potentials (300–5,000 Hz) and perform data reduction before transmitting the data. The platform achieves a measured data reduction ratio of 7.77 (for a firing rate of 50 AP/second) and weights 4.7 g with a 100-mAh battery, an on/off switch and a protective plastic enclosure. To validate the performance of the platform, we measured distinct electrophysiology signals and performed optogenetics stimulation in vivo in freely moving rondents. We recorded AP and LFP signals with the platform using a 16-microelectrode array implanted in the primary motor cortex of a Long Evans rat, both in anesthetized and freely moving conditions. EMG responses to optogenetic Channelrhodopsin-2 induced activation of motor cortex via optical fiber were also recorded in freely moving rodents

A low-cost, wireless, 3-D-printed custom armband for sEMG hand gesture recognition

Wearable technology can be employed to elevate the abilities of humans to perform demanding and complex tasks more efficiently. Armbands capable of surface electromyography (sEMG) are attractive and noninvasive devices from which human intent can be derived by leveraging machine learning. However, the sEMG acquisition systems currently available tend to be prohibitively costly for personal use or sacrifice wearability or signal quality to be more affordable. This work introduces the 3DC Armband designed by the Biomedical Microsystems Laboratory in Laval University; a wireless, 10-channel, 1000 sps, dry-electrode, low-cost ( 150 USD) myoelectric armband that also includes a 9-axis inertial measurement unit. The proposed system is compared with the Myo Armband by Thalmic Labs, one of the most popular sEMG acquisition systems. The comparison is made by employing a new offline dataset featuring 22 able-bodied participants performing eleven hand/wrist gestures while wearing the two armbands simultaneously. The 3DC Armband systematically and significantly (p < 0.05) outperforms the Myo Armband, with three different classifiers employing three different input modalities when using ten seconds or more of training data per gesture. This new dataset, alongside the source code, Altium project and 3-D models are made readily available for download within a Github repository

Technological challenges in the development of optogenetic closed-loop therapy approaches in epilepsy and related network disorders of the brain

Epilepsy is a chronic, neurological disorder affecting millions of people every year. The current available pharmacological and surgical treatments are lacking in overall efficacy and cause side-effects like cognitive impairment, depression, tremor, abnormal liver and kidney function. In recent years, the application of optogenetic implants have shown promise to target aberrant neuronal circuits in epilepsy with the advantage of both high spatial and temporal resolution and high cell-specificity, a feature that could tackle both the efficacy and side-effect problems in epilepsy treatment. Optrodes consist of electrodes to record local field potentials and an optical component to modulate neurons via activation of opsin expressed by these neurons. The goal of optogenetics in epilepsy is to interrupt seizure activity in its earliest state, providing a so-called closed-loop therapeutic intervention. The chronic implantation in vivo poses specific demands for the engineering of therapeutic optrodes. Enzymatic degradation and glial encapsulation of implants may compromise long-term recording and sufficient illumination of the opsin-expressing neural tissue. Engineering efforts for optimal optrode design have to be directed towards limitation of the foreign body reaction by reducing the implant’s elastic modulus and overall size, while still providing stable long-term recording and large-area illumination, and guaranteeing successful intracerebral implantation. This paper presents an overview of the challenges and recent advances in the field of electrode design, neural-tissue illumination, and neural-probe implantation, with the goal of identifying a suitable candidate to be incorporated in a therapeutic approach for long-term treatment of epilepsy patients

The rise of flexible electronics in neuroscience, from materials selection to in vitro and in vivo applications

Neuroscience deals with one of the most complicate system we can study: the brain. The huge amount of connections among the cells and the different phenomena occurring at different scale give rise to a continuous flow of data that have to be collected, analyzed and interpreted. Neuroscientists try to interrogate this complexity to find basic principles underlying brain electrochemical signalling and human/animal behaviour to disclose the mechanisms that trigger neurodegenerative diseases and to understand how restoring damaged brain circuits. The main tool to perform these tasks is a neural interface, a system able to interact with brain tissue at different levels to provide a uni/bidirectional communication path. Recently, breakthroughs coming from various disciplines have been combined to enforce features and potentialities of neural interfaces. Among the different findings, flexible electronics is playing a pivotal role in revolutionizing neural interfaces. In this work, we review the most recent advances in the fabrication of neural interfaces based on flexible electronics. We define challenges and issues to be solved for the application of such platforms and we discuss the different parts of the system regarding improvements in materials selection and breakthrough in applications both for in vitro and in vivo tests