Journal of Neuroscience Methods

Article	Citations
Data augmentation for deep-learning-based electroencephalography	204
NODDI in clinical research	117
Osprey: Open-source processing, reconstruction & estimation of magnetic resonance spectroscopy data	106
Challenges for biophysical modeling of microstructure	87
Deep residual learning for neuroimaging: An application to predict progression to Alzheimer’s disease	81
A systematic review of EEG source localization techniques and their applications on diagnosis of brain abnormalities	80
DeepFMRI: End-to-end deep learning for functional connectivity and classification of ADHD using fMRI	79
Hippocampal atrophy based Alzheimer’s disease diagnosis via machine learning methods	62
High-pass filtering artifacts in multivariate classification of neural time series data	62
High-throughput screening of human induced pluripotent stem cell-derived brain organoids	58
Animal models of pain: Diversity and benefits	56
Grad-CAM helps interpret the deep learning models trained to classify multiple sclerosis types using clinical brain magnetic resonance imaging	55
A major depressive disorder classification framework based on EEG signals using statistical, spectral, wavelet, functional connectivity, and nonlinear analysis	54
A comprehensive assessment of Brain Computer Interfaces: Recent trends and challenges	51
An EEG-fNIRS hybridization technique in the four-class classification of alzheimer’s disease	51
The sensitivity of diffusion MRI to microstructural properties and experimental factors	51
TMS-induced silent periods: A review of methods and call for consistency	51
CWT Based Transfer Learning for Motor Imagery Classification for Brain computer Interfaces	50
TAAC - TMS Adaptable Auditory Control: A universal tool to mask TMS clicks	46
The rt-TEP tool: real-time visualization of TMS-Evoked Potentials to maximize cortical activation and minimize artifacts	46
Through the looking glass: A review of cranial window technology for optical access to the brain	45
A convolutional-recurrent neural network approach to resting-state EEG classification in Parkinson’s disease	45
Multi-modal neuroimaging feature fusion for diagnosis of Alzheimer’s disease	45
MI-EEGNET: A novel convolutional neural network for motor imagery classification	44
AIMAFE: Autism spectrum disorder identification with multi-atlas deep feature representation and ensemble learning	42

Gradient waveform design for tensor-valued encoding in diffusion MRI	41
Towards in vivo g-ratio mapping using MRI: Unifying myelin and diffusion imaging	39
Efficient whole brain transduction by systemic infusion of minimally purified AAV-PHP.eB	39
Model-based geometrical optimisation and in vivo validation of a spatially selective multielectrode cuff array for vagus nerve neuromodulation	39
Determining the number of states in dynamic functional connectivity using cluster validity indexes	38
Automatic classification methods for detecting drowsiness using wavelet packet transform extracted time-domain features from single-channel EEG signal	38
The role of electroencephalography electrical reference in the assessment of functional brain–heart interplay: From methodology to user guidelines	38
EEG Integrated Platform Lossless (EEG-IP-L) pre-processing pipeline for objective signal quality assessment incorporating data annotation and blind source separation	37
Single-trial EEG emotion recognition using Granger Causality/Transfer Entropy analysis	37
Non-invasive brain stimulation for Parkinson’s disease: Clinical evidence, latest concepts and future goals: A systematic review	36
A novel approach for automated alcoholism detection using Fourier decomposition method	36
Machine learning methods for brain network classification: Application to autism diagnosis using cortical morphological networks	35
Neural anatomy and optical microscopy (NAOMi) simulation for evaluating calcium imaging methods	35
Classification of Parkinson's disease based on multi-modal features and stacking ensemble learning	34
A novel approach to correlate the salivary exosomes and their protein cargo in the progression of cognitive impairment into Alzheimer’s disease	31
Reproducibility of power spectrum, functional connectivity and network construction in resting-state EEG	31
Neural signal recording and processing in somatic neuroprosthetic applications. A review	31
Functional network connectivity (FNC)-based generative adversarial network (GAN) and its applications in classification of mental disorders	31
Use of common average reference and large-Laplacian spatial-filters enhances EEG signal-to-noise ratios in intrinsic sensorimotor activity	30
Can transsynaptic viral strategies be used to reveal functional aspects of neural circuitry?	30
Influence of multiple hypothesis testing on reproducibility in neuroimaging research: A simulation study and Python-based software	30
Isolation, culture, and downstream characterization of primary microglia and astrocytes from adult rodent brain and spinal cord	30
Neural tissue-microelectrode interaction: Brain micromotion, electrical impedance, and flexible microelectrode insertion	29
Methods for mechanical delivery of viral vectors into rhesus monkey brain	29
Machine learning applications on neuroimaging for diagnosis and prognosis of epilepsy: A review	28
VEP atlas: An anatomic and functional human brain atlas dedicated to epilepsy patients	28
A data-driven method to identify frequency boundaries in multichannel electrophysiology data	28
Diagnostic classification of autism using resting-state fMRI data improves with full correlation functional brain connectivity compared to partial correlation	27
Brain imaging-based machine learning in autism spectrum disorder: methods and applications	27
Use of the CatWalk gait analysis system to assess functional recovery in rodent models of peripheral nerve injury – a systematic review	27
A drug-vs-food “choice” self-administration procedure in rats to investigate pharmacological and environmental mechanisms of substance use disorders	27
On the merits of non-invasive myelin imaging in epilepsy, a literature review	27
Constructing Multi-scale Entropy Based on the Empirical Mode Decomposition(EMD) and its Application in Recognizing Driving Fatigue	27
Using rAAV2-retro in rhesus macaques: Promise and caveats for circuit manipulation	26
From cell lines to pluripotent stem cells for modelling Parkinson's Disease	26
LFP-Net: A deep learning framework to recognize human behavioral activities using brain STN-LFP signals	26
Adaptive spike detection and hardware optimization towards autonomous, high-channel-count BMIs	26
GRP-DNet: A gray recurrence plot-based densely connected convolutional network for classification of epileptiform EEG	25
MicroCT optimisation for imaging fascicular anatomy in peripheral nerves	25
Double diffusion encoding and applications for biomedical imaging	25
The zebrafish tail immobilization (ZTI) test as a new tool to assess stress-related behavior and a potential screen for drugs affecting despair-like states	25
A novel method for calculating beta band burst durations in Parkinson’s disease using a physiological baseline	23
Diagnosis of Alzheimer's disease based on regional attention with sMRI gray matter slices	23
Development of a combined, sequential real-time fMRI and fNIRS neurofeedback system to enhance motor learning after stroke	22
The present and the future of microstructure MRI: From a paradigm shift to normal science	22
Open-source raspberry Pi-based operant box for translational behavioral testing in rodents	22
A review of critical challenges in MI-BCI: From conventional to deep learning methods	22
Quantifying volume conducted potential using stimulation artefact in cortico-cortical evoked potentials	22
Improvement motor imagery EEG classification based on sparse common spatial pattern and regularized discriminant analysis	21
Theoretical and methodological analysis of EEG based seizure detection and prediction: An exhaustive review	21

Genetically encoded sensors towards imaging cAMP and PKA activity in vivo	21
A method for quantification of vesicular compartments within cells using 3D reconstructed confocal z-stacks: Comparison of ImageJ and Imaris to count early endosomes within basal forebrain cholinergic	21
Decoding olfactory stimuli in EEG data using nonlinear features: A pilot study	21
A simple Ca2+-imaging approach to neural network analyses in cultured neurons	20
A hybrid method for artifact removal of visual evoked EEG	20
Peripheral Focused Ultrasound Neuromodulation (pFUS)	20
Retrograde gene transfer into neural pathways mediated by adeno-associated virus (AAV)-AAV receptor interaction	20
A kernel-based method to calculate local field potentials from networks of spiking neurons	20
Correcting physiological noise in whole-head functional near-infrared spectroscopy	20
Designing and comparing cleaning pipelines for TMS-EEG data: A theoretical overview and practical example	20
Convolutional neural networks ensemble model for neonatal seizure detection	20
Comparative analysis of spectral and temporal combinations in CSP-based methods for decoding hand motor imagery tasks	20
Motor imagery EEG decoding using manifold embedded transfer learning	20
Automatic sleep scoring: A deep learning architecture for multi-modality time series	19
Virtual histology of an entire mouse brain from formalin fixation to paraffin embedding. Part 1: Data acquisition, anatomical feature segmentation, tracking global volume and density changes	19
Probing neural tissues at small scales: Recent progress of oscillating gradient spin echo (OGSE) neuroimaging in humans	19
Dynamics of isoflurane-induced vasodilation and blood flow of cerebral vasculature revealed by multi-exposure speckle imaging	19
Removing artifacts from TMS-evoked EEG: A methods review and a unifying theoretical framework	19
Fiber optic sensor embedded smart helmet for real-time impact sensing and analysis through machine learning	18
Gaussian discriminative component analysis for early detection of Alzheimer’s disease: A supervised dimensionality reduction algorithm	18
Automated sleep state classification of wide-field calcium imaging data via multiplex visibility graphs and deep learning	18
Long-term culture of SH-SY5Y neuroblastoma cells in the absence of neurotrophins: A novel model of neuronal ageing	17
Aging effect on head motion: A Machine Learning study on resting state fMRI data	17
The role of neuronavigation in TMS–EEG studies: Current applications and future perspectives	17
Invited review: Utilizing peripheral nerve regenerative elements to repair damage in the CNS	17
Detecting acute pain signals from human EEG	17
Eavesdropping wires: Recording activity in axons using genetically encoded calcium indicators	17
Near-infrared and far-red genetically encoded indicators of neuronal activity	17
Genetically encoded sensors for Chloride concentration	16
A hybrid high-resolution anatomical MRI atlas with sub-parcellation of cortical gyri using resting fMRI	16
Acute in vivo testing of a polymer cuff electrode with integrated microfluidic channels for stimulation, recording, and drug delivery on rat sciatic nerve	16
EEG artifact rejection by extracting spatial and spatio-spectral common components	16
Spatial extent of cortical motor hotspot in navigated transcranial magnetic stimulation	16
Increased maturation of iPSC-derived neurons in a hydrogel-based 3D culture	16
Classification of Schizophrenia by Seed-based Functional Connectivity using Prefronto-Temporal Functional Near Infrared Spectroscopy	16
Differences in cerebral blood vasculature and flow in awake and anesthetized mouse cortex revealed by quantitative optical coherence tomography angiography	16
Bridging the gap: TMS-EEG from lab to clinic	16
Advances in modelling alpha-synuclein-induced Parkinson’s diseases in rodents: Virus-based models versus inoculation of exogenous preformed toxic species	16
Development and validation of chemical kindling in adult zebrafish: A simple and improved chronic model for screening of antiepileptic agents	16
Realistic Microstructure Simulator (RMS): Monte Carlo simulations of diffusion in three-dimensional cell segmentations of microscopy images	16
Morphological active contour model for automatic brain tumor extraction from multimodal magnetic resonance images	15
A novel approach combining temporal and spectral features of Arabic online handwriting for Parkinson’s disease prediction	15
Multiparametric EEG analysis of brain network dynamics during neonatal seizures	15
Recording local field potential and neuronal activity with tetrodes in epileptic patients	15
Detection and analysis of MEG signals in occipital region with double-channel OPM sensors	15
Tracking differential activation of primary and supplementary motor cortex across timing tasks: An fNIRS validation study	15
Array processing of neural signals recorded from the peripheral nervous system for the classification of action potentials	15
A vapor exposure method for delivering heroin alters nociception, body temperature and spontaneous activity in female and male rats	14
The blood biomarkers puzzle – A review of protein biomarkers in neurodegenerative diseases	14
A review on Alzheimer’s disease classification from normal controls and mild cognitive impairment using structural MR images	14
Development of deep learning models for microglia analyses in brain tissue using DeePathology™ STUDIO	14
Identifying novel biomarkers with TMS-EEG – Methodological possibilities and challenges	14
Probability mapping based artifact detection and removal from single-channel EEG signals for brain–computer interface applications	14
A novel deep learning model based on the ICA and Riemannian manifold for EEG-based emotion recognition	14
EEG signal varies with different outcomes in comatose patients: A quantitative method of electroencephalography reactivity	14
NeuroGPU: Accelerating multi-compartment, biophysically detailed neuron simulations on GPUs	14
A radiofrequency coil to facilitate task-based fMRI of awake marmosets	14
Topological portraits of multiscale coordination dynamics	14
Effects of the concentration level, eye fatigue and coffee consumption on the performance of a BCI system based on visual ERP-P300	14
A novel-odour exploration test for measuring anxiety in adult and larval zebrafish	13
FB-EEGNet: A fusion neural network across multi-stimulus for SSVEP target detection	13
Noninvasive three-state sleep-wake staging in mice using electric field sensors	13
Microstructure with diffusion MRI: what scale we are sensitive to?	13
Visual Gait Lab: A user-friendly approach to gait analysis	13
An LC-APCI+-MS/MS-based method for determining the concentration of neurosteroids in the brain of male mice with different gut microbiota	13
A review of methods for classification and recognition of ASD using fMRI data	13
Automatic coregistration of MRI and on-scalp MEG	13
Validation of DREADD agonists and administration route in a murine model of sleep enhancement	13
Design-Based stereology and binary image histomorphometry in nerve assessment	13
An efficient approach for wholemount preparation of the myenteric plexus of rat colon	13
Multi-view optimization of time-frequency common spatial patterns for brain-computer interfaces	13
Fascicle localisation within peripheral nerves through evoked activity recordings: A comparison between electrical impedance tomography and multi-electrode arrays	13
Temporal frequency joint sparse optimization and fuzzy fusion for motor imagery-based brain-computer interfaces	12
Decoding olfactory EEG signals for different odor stimuli identification using wavelet-spatial domain feature	12
A manual multiplex immunofluorescence method for investigating neurodegenerative diseases	12
Quantifying mitochondrial volume density in phrenic motor neurons	12
Feature Selection Using Extreme Gradient Boosting Bayesian Optimization to upgrade the Classification Performance of Motor Imagery signals for BCI	12
A hybrid method for muscle artifact removal from EEG signals	12
µ-rhythm phase from somatosensory but not motor cortex correlates with corticospinal excitability in EEG-triggered TMS	12
Adaptation of robust Z’ factor for assay quality assessment in microelectrode array based screening using adult dorsal root ganglion neurons	12

A classification algorithm of an SSVEP brain-Computer interface based on CCA fusion wavelet coefficients	12
A multi-metric approach to characterizing mouse peripheral auditory nerve function using the auditory brainstem response	12
Viruses in connectomics: Viral transneuronal tracers and genetically modified recombinants as neuroscience research tools	11
Models of dystonia: an update	11
Fuzzy ensemble system for SSVEP stimulation frequency detection using the MLR and MsetCCA	11
A new methodological approach for in vitro determination of the role of DNA methylation on transcription factor binding using AlphaScreen® analysis: Focus on CREB1 binding at hBDNF promoter IV	11
LC–MS/MS analysis of twelve neurotransmitters and amino acids in mouse cerebrospinal fluid	11
A scalable, fully automated approach for regional quantification of immunohistochemical staining of astrocytes in the rat brain	11
OpenSync: An open-source platform for synchronizing multiple measures in neuroscience experiments	11
DRGquant: A new modular AI-based pipeline for 3D analysis of the DRG	11
Functional interrogation of neural circuits with virally transmitted optogenetic tools	11
Functional connectivity using high density EEG shows competitive reliability and agreement across test/retest sessions	11
Mu rhythm separation from the mix with alpha rhythm: Principal component analyses and factor topography	11
Identification and verification of a 'true' TMS evoked potential in TMS-EEG	11
Controllable forces for reproducible chronic constriction injury mimicking compressive neuropathy in rat sciatic nerve	11
Blind deconvolution for spike inference from fluorescence recordings	11
Light-field microscopy for fast volumetric brain imaging	11
Focal transcranial magnetic stimulation in awake rats: Enhanced glucose uptake in deep cortical layers	11
High-resolution magnetic resonance imaging-based atlases for the young and adolescent domesticated pig (Sus scrofa)	11
Virtual histology of an entire mouse brain from formalin fixation to paraffin embedding. Part 2: Volumetric strain fields and local contrast changes	11
Fluorescence microendoscopy for in vivo deep-brain imaging of neuronal circuits	10
The diagnosis of amnestic mild cognitive impairment by combining the characteristics of brain functional network and support vector machine classifier	10
Crispr/Cas-based modeling of NF2 loss in meningioma cells	10
A fisher linear discriminant analysis classifier fused with naïve Bayes for simultaneous detection in an asynchronous brain-computer interface	10
Novel method to produce a layered 3D scaffold for human pluripotent stem cell-derived neuronal cells	10
Deep brain stimulation in dystonia: State of art and future directions	10
Quality assessment of anatomical MRI images from generative adversarial networks: Human assessment and image quality metrics	10
Recording of spontaneous vagus nerve activity during Pentylenetetrazol-induced seizures in rats	10
Protein-retention expansion microscopy for visualizing subcellular organelles in fixed brain tissue	10
Revisiting CB1 cannabinoid receptor detection and the exploration of its interacting partners	10
The impact of water changes on stress and subject variation in a zebrafish (Danio rerio) anxiety-related task	10
Age and sex differences in primary microglia culture: A comparative study	10
TMS-EEG responses across the lifespan: Measurement, methods for characterisation and identified responses	10
Virtual EEG-electrodes: Convolutional neural networks as a method for upsampling or restoring channels	10
Aptamer-modified biosensors to visualize neurotransmitter flux	10
An MRI protocol for anatomical and functional evaluation of the California sea lion brain	10
Decoding Imagined Speech and Computer Control using Brain Waves	10
An inhalation anaesthesia approach for neonatal mice allowing streamlined stereotactic injection in the brain	10
Estimation of laminar BOLD activation profiles using deconvolution with a physiological point spread function	10
Integration of flexible polyimide arrays into soft extracellular matrix-based hydrogel materials for a tissue-engineered electronic nerve interface (TEENI)	10
Spatial-frequency-temporal convolutional recurrent network for olfactory-enhanced EEG emotion recognition	10
Moving back in the brain to drive the field forward: Targeting neurostimulation to different brain regions in animal models of depression and neurodegeneration	10
Modular assays for the quantitative study of visually guided navigation in both flying and walking flies	10
Cuff and sieve electrode (CASE): The combination of neural electrodes for bi-directional peripheral nerve interfacing	10
Automated detection of subthalamic nucleus in deep brain stimulation surgery for Parkinson’s disease using microelectrode recordings and wavelet packet features	10
An idle state-detecting method based on transient visual evoked potentials for an asynchronous ERP-based BCI	10
An efficient new assay for measuring zebrafish anxiety: Tall tanks that better characterize between-individual differences	10
Validation of an EEG seizure detection paradigm optimized for clinical use in a chronically implanted subcutaneous device	10
Identification of brain structures and blood vessels by conventional ultrasound in rats	10
Ballistocardiogram artifact removal in simultaneous EEG-fMRI using generative adversarial network	9
Locomotion is impacted differently according to the perinatal brain injury model: Meta-analysis of preclinical studies with implications for cerebral palsy	9
Tangential high-density electrode insertions allow to simultaneously measure neuronal activity across an extended region of the visual field in mouse superior colliculus	9
A novel 5D brain parcellation approach based on spatio-temporal encoding of resting fMRI data from deep residual learning	9
CluSem: Accurate clustering-based ensemble method to predict motor imagery tasks from multi-channel EEG data	9
Golgi-Cox impregnation combined with fluorescence staining of amyloid plaques reveals local spine loss in an Alzheimer mouse model	9
DDeep3M: Docker-powered deep learning for biomedical image segmentation	9
Real-Time Point Process Filter for Multidimensional Decoding Problems Using Mixture Models	9
Protocols for instrumental memory reconsolidation in rodents: A methodological review	9
A standardized head-fixation system for performing large-scale, in vivo physiological recordings in mice	9
Mining naturalistic human behaviors in long-term video and neural recordings	9
Longitudinal survival analysis and two-group comparison for predicting the progression of mild cognitive impairment to Alzheimer's disease	9
Imaging the endocannabinoid signaling system	9
Classification of EEG signals: An interpretable approach using functional data analysis	9
Topology-guided cyclic brain connectivity generation using geometric deep learning	9
Integrated 3D motion analysis with functional magnetic resonance neuroimaging to identify neural correlates of lower extremity movement	9
Measuring metabolic rate in single flies during sleep and waking states via indirect calorimetry	9
Source-based artifact-rejection techniques for TMS–EEG	9
Effectively combining temporal projection noise suppression methods in magnetoencephalography	9
Ca2+ imaging of neurons in freely moving rats with automatic post hoc histological identification	9
Modified middle cerebral artery occlusion model provides detailed intraoperative cerebral blood flow registration and improves neurobehavioral evaluation	9
Unlocking the brain: A new method for Western blot protein detection from fixed brain tissue	9
A Deep Learning Approach for Automated Sleep-Wake Scoring in Pre-Clinical Animal Models	9
All-optical electrophysiology in behaving animals	9
Use of transcranial magnetic stimulation for studying the neural basis of numerical cognition: A systematic review	9
Nonhuman primate models of ischemic stroke and neurological evaluation after stroke	9
Use of viruses for interrogating viscera-specific projections in central nervous system	9
Pseudotyped lentiviral vectors for tract-targeting and application for the functional control of selective neural circuits	9
An emerging method to noninvasively measure and identify vagal response markers to enable bioelectronic control of gastroparesis symptoms with gastric electrical stimulation	8
A 120-target brain-computer interface based on code-modulated visual evoked potentials	8
A multiscale siamese convolutional neural network with cross-channel fusion for motor imagery decoding	8
Deep active learning for interictal ictal injury continuum EEG patterns	8
Toolkit for Oscillatory Real-time Tracking and Estimation (TORTE)	8
Methodological and analytical issues of progressive ratio schedules: Definition and scaling of breakpoint	8
SimMEEG software for simulating event-related MEG and EEG data with underlying functional connectivity	8
A 3D cell culture approach for studying neuroinflammation	8
Comparison of feature selection methods based on discrimination and reliability for fMRI decoding analysis	8
Optimizing multivariate pattern classification in rapid event-related designs	8
Translating morphology from bench side to bed side via neurophysiology: 8-min protocol for peripheral neuropathy research	8
Modular and state-relevant functional network connectivity in high-frequency eyes open vs eyes closed resting fMRI data	8
Probing machine-learning classifiers using noise, bubbles, and reverse correlation	8
Novel ablation methods for treatment of gliomas	8
Spectral Independent Component Analysis with noise modeling for M/EEG source separation	8
A comparison of the Avisoft (v.5.2) and MATLAB Mouse Song Analyzer (v.1.3) vocalization analysis systems in C57BL/6, Fmr1-FVB.129, NS-Pten-FVB, and 129 mice	8
A novel ex vivo, in situ method to study the human brain through MRI and histology	8
The reliability of two prospective cortical biomarkers for pain: EEG peak alpha frequency and TMS corticomotor excitability	8