Spike Data Research Articles

Synthetic data-driven overlapped neural spikes sorting: decomposing hidden spikes from overlapping spikes

Sorting spikes from extracellular recordings, obtained by sensing neuronal activity around an electrode tip, is essential for unravelling the complexities of neural coding and its implications across diverse neuroscientific disciplines. However, the presence of overlapping spikes, originating from neurons firing simultaneously or within a short delay, has been overlooked because of the difficulty in identifying individual neurons due to the lack of ground truth. In this study, we propose a method to identify overlapping spikes in extracellular recordings and to recover hidden spikes by decomposing them. We initially estimate spike waveform templates through a series of steps, including discriminative subspace learning and the isolation forest algorithm. By leveraging these estimated templates, we generate synthetic spikes and train a classifier using their feature components to identify overlapping spikes from observed spike data. The identified overlapping spikes are then decomposed into individual hidden spikes using a particle swarm optimization. Results from the testing of the proposed approach, using the simulation dataset we generated, demonstrated that employing synthetic spikes in the overlapping spike classifier accurately identifies overlapping spikes among the detected ones (the maximum F1 score of 0.88). Additionally, the approach can infer the synchronization between hidden spikes by decomposing the overlapped spikes and reallocating them into distinct clusters. This study advances spike sorting by accurately identifying overlapping spikes, providing a more precise tool for neural activity analysis.

Decoding Continuous Tracking Eye Movements from Cortical Spiking Activity.

Eye movements are the primary way primates interact with the world. Understanding how the brain controls the eyes is therefore crucial for improving human health and designing visual rehabilitation devices. However, brain activity is challenging to decipher. Here, we leveraged machine learning algorithms to reconstruct tracking eye movements from high-resolution neuronal recordings. We found that continuous eye position could be decoded with high accuracy using spiking data from only a few dozen cortical neurons. We tested eight decoders and found that neural network models yielded the highest decoding accuracy. Simpler models performed well above chance with a substantial reduction in training time. We measured the impact of data quantity (e.g. number of neurons) and data format (e.g. bin width) on training time, inference time, and generalizability. Training models with more input data improved performance, as expected, but the format of the behavioral output was critical for emphasizing or omitting specific oculomotor events. Our results provide the first demonstration, to our knowledge, of continuously decoded eye movements across a large field of view. Our comprehensive investigation of predictive power and computational efficiency for common decoder architectures provides a much-needed foundation for future work on real-time gaze-tracking devices.

A data compression algorithm with the improved SRLE for high-throughput neural signal acquisition device.

Multi-channel acquisition systems of brain neural signals can provide a powerful tool with a wide range of information for the clinical application of brain computer interfaces. High-throughput implantable systems are limited by size and power consumption, posing challenges to system design. To acquire more comprehensive neural signals and wirelessly transmit high-throughput brain neural signals, a FPGA-based acquisition system for multi-channel brain nerve signals has been developed. And the Bluetooth transmission with low-power technology are utilized. To wirelessly transmit large amount of data with limited Bluetooth bandwidth and improve the accuracy of neural signal decoding, an improved sharing run length encoding (SRLE) is proposed to compress the spike data of brain neural signal to improve the transmission efficiency of the system. The functional prototype has been developed, which consists of multi-channel data acquisition chips, FPGA main control module with the improved SRLE, a wireless data transmitter, a wireless data receiver and an upper computer. And the developed functional prototype was tested for spike detection of brain neural signal by animal experiments. From the animal experiments, it shows that the system can successfully collect and transmit brain nerve signals. And the improved SRLE algorithm has an excellent compression effect with the average compression rate of 5.94%, compared to the double run-length encoding, the FDR encoding, and the traditional run-length encoding. The developed system, incorporating the improved SRLE algorithm, is capable of wirelessly capturing spike signals with 1024 channels, thereby realizing the implantable systems of High-throughput brain neural signals.

Reducing power requirements for high-accuracy decoding in iBCIs

Objective.Current intracortical brain-computer interfaces (iBCIs) rely predominantly on threshold crossings ('spikes') for decoding neural activity into a control signal for an external device. Spiking data can yield high accuracy online control during complex behaviors; however, its dependence on high-sampling-rate data collection can pose challenges. An alternative signal for iBCI decoding is the local field potential (LFP), a continuous-valued signal that can be acquired simultaneously with spiking activity. However, LFPs are seldom used alone for online iBCI control as their decoding performance has yet to achieve parity with spikes.Approach.Here, we present a strategy to improve the performance of LFP-based decoders by first training a neural dynamics model to use LFPs to reconstruct the firing rates underlying spiking data, and then decoding from the estimated rates. We test these models on previously-collected macaque data during center-out and random-target reaching tasks as well as data collected from a human iBCI participant during attempted speech.Main results.In all cases, training models from LFPs enables firing rate reconstruction with accuracy comparable to spiking-based dynamics models. In addition, LFP-based dynamics models enable decoding performance exceeding that of LFPs alone and approaching that of spiking-based models. In all applications except speech, LFP-based dynamics models also facilitate decoding accuracy exceeding that of direct decoding from spikes.Significance.Because LFP-based dynamics models operate on lower bandwidth and with lower sampling rate than spiking models, our findings indicate that iBCI devices can be designed to operate with lower power requirements than devices dependent on recorded spiking activity, without sacrificing high-accuracy decoding.

Latent dynamics of primary sensory cortical population activity structured by fluctuations in the local field potential.

As emerging technologies enable measurement of precise details of the activity within microcircuits at ever-increasing scales, there is a growing need to identify the salient features and patterns within the neural populations that represent physiologically and behaviorally relevant aspects of the network. Accumulating evidence from recordings of large neural populations suggests that neural population activity frequently exhibits relatively low-dimensional structure, with a small number of variables explaining a substantial fraction of the structure of the activity. While such structure has been observed across the brain, it is not known how reduced-dimension representations of neural population activity relate to classical metrics of "brain state," typically described in terms of fluctuations in the local field potential (LFP), single-cell activity, and behavioral metrics. Hidden state models were fit to spontaneous spiking activity of populations of neurons, recorded in the whisker area of primary somatosensory cortex of awake mice. Classic measures of cortical state in S1, including the LFP and whisking activity, were compared to the dynamics of states inferred from spiking activity. A hidden Markov model fit the population spiking data well with a relatively small number of states, and putative inhibitory neurons played an outsize role in determining the latent state dynamics. Spiking states inferred from the model were more informative of the cortical state than a direct readout of the spiking activity of single neurons or of the population. Further, the spiking states predicted both the trial-by-trial variability in sensory responses and one aspect of behavior, whisking activity. Our results show how classical measurements of brain state relate to neural population spiking dynamics at the scale of the microcircuit and provide an approach for quantitative mapping of brain state dynamics across brain areas.

Photonic neuromorphic accelerators for event-based imaging flow cytometry

In this work, we present experimental results of a high-speed label-free imaging cytometry system that seamlessly merges the high-capturing rate and data sparsity of an event-based CMOS camera with lightweight photonic neuromorphic processing. This combination offers high classification accuracy and a massive reduction in the number of trainable parameters of the digital machine-learning back-end. The event-based camera is capable of capturing 1 Gevents/sec, where events correspond to pixel contrast changes, similar to the retina’s ganglion cell function. The photonic neuromorphic accelerator is based on a hardware-friendly passive optical spectrum slicing technique that is able to extract meaningful features from the generated spike-trains using a purely analogue version of the convolutional operation. The experimental scenario comprises the discrimination of artificial polymethyl methacrylate calibrated beads, having different diameters, flowing at a mean speed of 0.1 m/sec. Classification accuracy, using only lightweight digital machine-learning schemes has topped at 98.2%. On the other hand, by experimentally pre-processing the raw spike data through the proposed photonic neuromorphic spectrum slicer at a rate of 3 × 106 images per second, we achieved an accuracy of 98.6%. This performance was accompanied by a reduction in the number of trainable parameters at the classification back-end by a factor ranging from 8 to 22, depending on the configuration of the digital neural network. These results confirm that neuromorphic sensing and neuromorphic computing can be efficiently merged to a unified bio-inspired system, offering a holistic enhancement in emerging bio-imaging applications.

A two-stage strategy for brain-inspired unsupervised learning in spiking neural networks

Spiking Neural Networks (SNNs) are emerging as a promising model in the field of neuromorphic computing, offering possibilities for efficient bio-inspired computing. Unsupervised learning in SNNs plays a crucial role in exploring neural network dynamics and achieving efficient artificial intelligence systems. However, current unsupervised learning in SNNs mostly relies on single-stage learning strategies, which limits the possibility of combining diverse learning mechanisms and network structures, resulting in networks that lack flexibility and adaptability for low-power task processing. Inspired by the multi-stage and multi-strategy learning in the human brain, this paper proposes a two-stage learning strategy from coarse to fine to enhance the efficiency of unsupervised learning in SNNs. To quickly extract structural features from spike data in the first stage, we propose the Spiking-SOM algorithm, which effectively learns patterns in spike data and achieves clustering effects. Additionally, we integrate Rate encoding and Temporal encoding through a visual attention mechanism, where this hybrid encoding helps meet the need for rapid information processing in the first stage, while also aiding in detailed feature representation in the second stage. Compared to the traditional single-stage learning framework, this work maintains high accuracy in unsupervised classification while significantly reducing computational costs and speeding up training. This exploration offers a new direction for future learning frameworks in SNNs, helping to further improve the energy efficiency of the network.

Fixational Eye Movements Enhance the Precision of Visual Information Transmitted by the Primate Retina.

Fixational eye movements alter the number and timing of spikes transmitted from the retina to the brain, but whether these changes enhance or degrade the retinal signal is unclear. To quantify this, we developed a Bayesian method for reconstructing natural images from the recorded spikes of hundreds of retinal ganglion cells (RGCs) in the macaque retina (male), combining a likelihood model for RGC light responses with the natural image prior implicitly embedded in an artificial neural network optimized for denoising. The method matched or surpassed the performance of previous reconstruction algorithms, and provides an interpretable framework for characterizing the retinal signal. Reconstructions were improved with artificial stimulus jitter that emulated fixational eye movements, even when the eye movement trajectory was assumed to be unknown and had to be inferred from retinal spikes. Reconstructions were degraded by small artificial perturbations of spike times, revealing more precise temporal encoding than suggested by previous studies. Finally, reconstructions were substantially degraded when derived from a model that ignored cell-to-cell interactions, indicating the importance of stimulus-evoked correlations. Thus, fixational eye movements enhance the precision of the retinal representation.

A sticky Poisson Hidden Markov Model for spike data.

Fitting a hidden Markov Model (HMM) to neural data is a powerful method to segment a spatiotemporal stream of neural activity into sequences of discrete hidden states. Application of HMM has allowed to uncover hidden states and signatures of neural dynamics that seem relevant for sensory and cognitive processes. This has been accomplished especially in datasets comprising ensembles of simultaneously recorded cortical spike trains. However, the HMM analysis of spike data is involved and requires a careful handling of model selection. Two main issues are: (i) the cross-validated likelihood function typically increases with the number of hidden states; (ii) decoding the data with an HMM can lead to very rapid state switching due to fast oscillations in state probabilities. The first problem is related to the phenomenon of over-segmentation and leads to overfitting. The second problem is at odds with the empirical fact that hidden states in cortex tend to last from hundred of milliseconds to seconds. Here, we show that we can alleviate both problems by regularizing a Poisson-HMM during training so as to enforce large self-transition probabilities. We call this algorithm the 'sticky Poisson-HMM' (sPHMM). When used to-gether with the Bayesian Information Criterion for model selection, the sPHMM successfully eliminates rapid state switching, outperforming an alternative strategy based on an HMM with a large prior on the self-transition probabilities. The sPHMM also captures the ground truth in surrogate datasets built to resemble the statistical properties of the experimental data.

Inference of Monosynaptic Connections from Parallel Spike Trains: A Review

This article presents a mini-review about the progress in inferring monosynaptic connections from spike trains of multiple neurons over the past twenty years. First, we explain a variety of meanings of “neuronal connectivity” in different research areas of neuroscience, such as structural connectivity, monosynaptic connectivity, and functional connectivity. Among these, we focus on the methods used to infer the monosynaptic connectivity from spike data. We then summarize the inference methods based on two main approaches, i.e., correlation-based and model-based approaches. Finally, we describe available source codes for connectivity inference and future challenges. Although inference will never be perfect, the accuracy of identifying the monosynaptic connections has improved dramatically in recent years due to continuous efforts.

Recording of single-unit activities with flexible micro-electrocorticographic array in rats for decoding of whole-body navigation

Objective.Micro-electrocorticographic (μECoG) arrays are able to record neural activities from the cortical surface, without the need to penetrate the brain parenchyma. Owing in part to small electrode sizes, previous studies have demonstrated that single-unit spikes could be detected from the cortical surface, and likely from Layer I neurons of the neocortex. Here we tested the ability to useμECoG arrays to decode, in rats, body position during open field navigation, through isolated single-unit activities.Approach. μECoG arrays were chronically implanted onto primary motor cortex (M1) of Wistar rats, and neural recording was performed in awake, behaving rats in an open-field enclosure. The signals were band-pass filtered between 300-3000 Hz. Threshold-crossing spikes were identified and sorted into distinct units based on defined criteria including waveform morphology and refractory period. Body positions were derived from video recordings. We used gradient-boosting machine to predict body position based on previous 100 ms of spike data, and correlation analyses to elucidate the relationship between position and spike patterns.Main results.Single-unit spikes could be extracted during chronic recording fromμECoG, and spatial position could be decoded from these spikes with a mean absolute error of prediction of 0.135 and 0.090 in the x- and y- dimensions (of a normalized range from 0 to 1), and Pearson's r of 0.607 and 0.571, respectively.Significance. μECoG can detect single-unit activities that likely arise from superficial neurons in the cortex and is a promising alternative to intracortical arrays, with the added benefit of scalability to cover large cortical surface with minimal incremental risks. More studies should be performed in human related to its use as brain-machine interface.

A fully automatic multichannel neural spike sorting algorithm with spike reduction and positional feature.

Objective: The sorting of neural spike data recorded by multichannel and high channel neural probes such as Neuropixels, especially in real-time, remains a significant technical challenge. Most neural spike sorting algorithms focus on sorting neural spikes post-hoc for high sorting accuracy-but reducing the processing delay for fast sorting, potentially even live sorting, is generally not possible with these algorithms.Approach: Here we report our Graph nEtwork Multichannel sorting (GEMsort) algorithm, which is largely based on graph network, to allow rapid neural spike sorting for multiple neural recording channels. This was accomplished by two innovations: In GEMsort, duplicated neural spikes recorded from multiple channels were eliminated from duplicate channels by only selecting the highest amplitude neural spike in any channel for subsequent processing. In addition, the channel from which the representative neural spike was recorded was used as an additional feature to differentiate between neural spikes recorded from different neurons having similar temporal features.Main results: Synthetic and experimentally recorded multichannel neural recordings were used to evaluate the sorting performance of GEMsort. The sorting results of GEMsort were also compared with two other state-of-the-art sorting algorithms (Kilosort and Mountainsort) in sorting time and sorting agreements.Significance: GEMsort allows rapidly sort neural spikes and is highly suitable to be implemented with digital circuitry for high processing speed and channel scalability.

Dopamine-mediated interactions between short- and long-term memory dynamics

In dynamic environments, animals make behavioural decisions on the basis of the innate valences of sensory cues and information learnt about these cues across multiple timescales1–3. However, it remains unclear how the innate valence of a sensory stimulus affects the acquisition of learnt valence information and subsequent memory dynamics. Here we show that in the Drosophila brain, interconnected short- and long-term memory units of the mushroom body jointly regulate memory through dopamine signals that encode innate and learnt sensory valences. By performing time-lapse in vivo voltage-imaging studies of neural spiking in more than 500 flies undergoing olfactory associative conditioning, we found that protocerebral posterior lateral 1 dopamine neurons (PPL1-DANs)4 heterogeneously and bidirectionally encode innate and learnt valences of punishment, reward and odour cues. During learning, these valence signals regulate memory storage and extinction in mushroom body output neurons (MBONs)5. During initial conditioning bouts, PPL1-γ1pedc and PPL1-γ2α′1 neurons control short-term memory formation, which weakens inhibitory feedback from MBON-γ1pedc>α/β to PPL1-α′2α2 and PPL1-α3. During further conditioning, this diminished feedback allows these two PPL1-DANs to encode the net innate plus learnt valence of the conditioned odour cue, which gates long-term memory formation. A computational model constrained by the fly connectome6,7 and our spiking data explains how dopamine signals mediate the circuit interactions between short- and long-term memory traces, yielding predictions that our experiments confirmed. Overall, the mushroom body achieves flexible learning through the integration of innate and learnt valences in parallel learning units sharing feedback interconnections. This hybrid physiological–anatomical mechanism may be a general means by which dopamine regulates memory dynamics in other species and brain structures, including the vertebrate basal ganglia.

SpiReco: Fast and Efficient Recognition of High-Speed Moving Objects With Spike Camera

Benefited from the high temporal resolution and high dynamic range, spike cameras have shown great potential in recognizing high-speed moving objects. However, the computer vision community has not explored this task due to the lack of spike data and annotations of high-speed moving objects. This paper contributes a novel dataset, named <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">SpiReco</i> ( <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">Spi</i> king datasets for <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">Reco</i> gnition), by recording high-speed moving objects using a spike camera. To annotate the dataset, image labels from established datasets such as MNIST, CIFAR10, and CALTECH101 are utilized. Based on this new dataset, this paper proposes the first spike-based object recognition framework. The proposed framework includes a denoise module, which is designed to suppress spike noise by learning spatio-temporal correlation from neighbouring pixels. Additionally, a motion enhancement module is introduced to address high-speed and random motions. Afterward, binarized neural networks are adopted to save computation costs. These efforts result in a fast and efficient processing framework for spiking data. Experimental results demonstrate the effectiveness of the proposed methods. For example, the proposed spike-based recognition framework achieves 80.2% accuracy in recognizing 101 classes of high-speed moving objects using only 2.2ms of spike streams. The SpiReco is available at https://github.com/Evin-X/SpiReco.

SCREENING OF DIFFERENT WHEAT VARIETIES UNDER RAINFED CONDITIONS

Triticum Aestivum L. is a major cereal crop grown worldwide. Wheat is staple diet for billions of people and animals feed in all over the world. This study used yield trial data from various sources to evaluate wheat cultivars under rainfed conditions. wheat has sown 1st October to 1St December. The study examined 10 wheat cultivars from three locations in one season. Some cultivars yielded consistently high across locations and seasons, while others yielded differently. The analysis also showed that soil type, sowing time, and cropping season weather affected cultivar yield performance. The study emphasizes the importance of choosing wheat cultivars that suit rainfed conditions and sowing time. RCBD design and three replications were used in this experiment. Different parameters were collected such as days to heading, days to maturity, number of tillers, no. of spikelet per spike, plant height, germination percentage, yield g/plot, and disease rust data in rainfed conditions. Randomized Complete Block design and LSD test were used for this experiment. Total 25 wheat genotypes were sown under rainfed conditions. 10 varieties perform better production under rainfed conditions. These varieties like Barani-17, Ehsan-16, Fakhar e Bhakkar, Bhakkar Star and Zincol, Akbar-19, Ujala-16, Inqlab-91, Anaj-17, Attock-19, and Ghazi-19 show better perform under rainfed condition. The findings can help wheat growers, seed companies, and policymakers choose the best rainfed wheat cultivars to boost wheat yields and food security.

Pathological cell assembly dynamics in a striatal MSN network model.

Under normal conditions the principal cells of the striatum, medium spiny neurons (MSNs), show structured cell assembly activity patterns which alternate sequentially over exceedingly long timescales of many minutes. It is important to understand this activity since it is characteristically disrupted in multiple pathologies, such as Parkinson's disease and dyskinesia, and thought to be caused by alterations in the MSN to MSN lateral inhibitory connections and in the strength and distribution of cortical excitation to MSNs. To understand how these long timescales arise we extended a previous network model of MSN cells to include synapses with short-term plasticity, with parameters taken from a recent detailed striatal connectome study. We first confirmed the presence of sequentially switching cell clusters using the non-linear dimensionality reduction technique, Uniform Manifold Approximation and Projection (UMAP). We found that the network could generate non-stationary activity patterns varying extremely slowly on the order of minutes under biologically realistic conditions. Next we used Simulation Based Inference (SBI) to train a deep net to map features of the MSN network generated cell assembly activity to MSN network parameters. We used the trained SBI model to estimate MSN network parameters from ex-vivo brain slice calcium imaging data. We found that best fit network parameters were very close to their physiologically observed values. On the other hand network parameters estimated from Parkinsonian, decorticated and dyskinetic ex-vivo slice preparations were different. Our work may provide a pipeline for diagnosis of basal ganglia pathology from spiking data as well as for the design pharmacological treatments.

A Novel Clustering Algorithm Integrating Gershgorin Circle Theorem and Nonmaximum Suppression for Neural Spike Data Analysis

(1) Problem Statement: The development of clustering algorithms for neural recordings has significantly evolved, reaching a mature stage with predominant approaches including partitional, hierarchical, probabilistic, fuzzy logic, density-based, and learning-based clustering. Despite this evolution, there remains a need for innovative clustering algorithms that can efficiently analyze neural spike data, particularly in handling diverse and noise-contaminated neural recordings. (2) Methodology: This paper introduces a novel clustering algorithm named Gershgorin—nonmaximum suppression (G–NMS), which incorporates the principles of the Gershgorin circle theorem, and a deep learning post-processing method known as nonmaximum suppression. The performance of G–NMS was thoroughly evaluated through extensive testing on two publicly available, synthetic neural datasets. The evaluation involved five distinct groups of experiments, totaling eleven individual experiments, to compare G–NMS against six established clustering algorithms. (3) Results: The results highlight the superior performance of G–NMS in three out of five group experiments, achieving high average accuracy with minimal standard deviation (SD). Specifically, in Dataset 1, experiment S1 (various SNRs) recorded an accuracy of 99.94 ± 0.01, while Dataset 2 showed accuracies of 99.68 ± 0.15 in experiment E1 (Easy 1) and 99.27 ± 0.35 in experiment E2 (Easy 2). Despite a slight decrease in average accuracy in the remaining two experiments, D1 (Difficult 1) and D2 (Difficult 2) from Dataset 2, compared to the top-performing clustering algorithms in these categories, G–NMS maintained lower SD, indicating consistent performance. Additionally, G–NMS demonstrated robustness and efficiency across various noise-contaminated neural recordings, ranging from low to high signal-to-noise ratios. (4) Conclusions: G–NMS’s integration of deep learning techniques and eigenvalue inclusion theorems has proven highly effective, marking a significant advancement in the clustering domain. Its superior performance, characterized by high accuracy and low variability, opens new avenues for the development of high-performing clustering algorithms, contributing significantly to the body of research in this field.

In and Out of Criticality? State-Dependent Scaling in the Rat Visual Cortex

The presumed proximity to a critical point is believed to endow the brain with scale-invariant statistics, which are thought to confer various functional advantages in terms of its information processing, storage, and transmission capabilities. To assess the relationship between scaling and cortical states, we apply a phenomenological renormalization group analysis to 3-h spiking data recordings from the urethane-anesthetized rat's visual cortex. Under this type of anesthesia, cortical states dynamically shift across a spectrum of synchronization levels, defined by population spiking rate variability. By developing a scaling criterion based on the kurtosis of the momentum-space activity distribution, our study combines the coarse-graining method with state-dependent analysis. We find that scaling signatures only appear as spiking variability surpasses a specified threshold. Notably, within this regime, scaling exponents show relative stability. Conversely, subthreshold activity is primarily asynchronous and fails to meet the scaling criterion. Our results suggest that a wide range of cortical states corresponds to small deviations around a critical point, with the system fluctuating in and out of criticality, spending roughly three-quarters of the experiment duration within a scaling regime. Published by the American Physical Society 2024

A longitudinal electrophysiological and behavior dataset for PD rat in response to deep brain stimulation

Here we presented an electrophysiological dataset collected from layer V of the primary motor cortex (M1) and the corresponding behavior dataset from normal and hemi-parkinson rats over 5 consecutive weeks. The electrophysiological dataset was constituted by the raw wideband signal, neuronal spikes, and local field potential (LFP) signal. The open-field test was done and recorded to evaluate the behavior variation of rats among the entire experimental cycle. We conducted technical validation of this dataset through sorting the spike data to form action potential waveforms and analyzing the spectral power of LFP data, then based on these findings a closed-loop DBS protocol was developed by the oscillation activity response of M1 LFP signal. Additionally, this protocol was applied to the hemi-parkinson rat for five consecutive days while simultaneously recording the electrophysiological data. This dataset is currently the only publicly available dataset that includes longitudinal closed-loop DBS recordings, which can be utilized to investigate variations of neuronal activity within the M1 following long-term closed-loop DBS, and explore additional reliable biomarkers.

Improvements for recording retinal function with Microelectrode Arrays

A microelectrode array (MEA) is a configuration of multiple electrodes that enables the concurrent targeting of multiple sites for extracellular recording and stimulation. By utilizing light pulses or electrical stimulations, MEA recordings unveil the complex patterns of electrical activities that arise from the signaling processes within the retinal network. Here, we present a stepwise approach for using microelectrode arrays (MEAs) for recording action potentials from the mouse retina in response to electrical and light stimuli. We provide detailed techniques accompanied by description of a custom optical system, example recordings, troubleshooting guidelines, and data processing methods including spike sorting and code resources for analyzing light and electrical responses. The comprehensive nature of this paper aims to guide researchers in utilizing MEAs effectively for investigating retinal functionality. In particular, it can be easy to have a MEA experiment fail, but hard to identify the source of the failure. This paper is meant to demystify that process. It includes:•A description of MEA setup, recording, and spike data validation.•A troubleshooting guide for common failure modes in MEA recordings from mouse retina.•Spike detection and sorting to precisely extract distinctive action potential.