Journal of Neuroscience Methods

Article	Citations
Data augmentation for deep-learning-based electroencephalography	212
NODDI in clinical research	128
Osprey: Open-source processing, reconstruction & estimation of magnetic resonance spectroscopy data	111
Challenges for biophysical modeling of microstructure	88
Deep residual learning for neuroimaging: An application to predict progression to Alzheimer’s disease	85
A systematic review of EEG source localization techniques and their applications on diagnosis of brain abnormalities	82
High-pass filtering artifacts in multivariate classification of neural time series data	65
Hippocampal atrophy based Alzheimer’s disease diagnosis via machine learning methods	62
Grad-CAM helps interpret the deep learning models trained to classify multiple sclerosis types using clinical brain magnetic resonance imaging	60
A major depressive disorder classification framework based on EEG signals using statistical, spectral, wavelet, functional connectivity, and nonlinear analysis	57
Animal models of pain: Diversity and benefits	56
The sensitivity of diffusion MRI to microstructural properties and experimental factors	54
TMS-induced silent periods: A review of methods and call for consistency	53
CWT Based Transfer Learning for Motor Imagery Classification for Brain computer Interfaces	53
A comprehensive assessment of Brain Computer Interfaces: Recent trends and challenges	53
TAAC - TMS Adaptable Auditory Control: A universal tool to mask TMS clicks	50
The rt-TEP tool: real-time visualization of TMS-Evoked Potentials to maximize cortical activation and minimize artifacts	50
Through the looking glass: A review of cranial window technology for optical access to the brain	47
AIMAFE: Autism spectrum disorder identification with multi-atlas deep feature representation and ensemble learning	46
Multi-modal neuroimaging feature fusion for diagnosis of Alzheimer’s disease	46
MI-EEGNET: A novel convolutional neural network for motor imagery classification	45
A convolutional-recurrent neural network approach to resting-state EEG classification in Parkinson’s disease	45
Towards in vivo g-ratio mapping using MRI: Unifying myelin and diffusion imaging	42
The role of electroencephalography electrical reference in the assessment of functional brain–heart interplay: From methodology to user guidelines	41
Gradient waveform design for tensor-valued encoding in diffusion MRI	41

Model-based geometrical optimisation and in vivo validation of a spatially selective multielectrode cuff array for vagus nerve neuromodulation	40
Automatic classification methods for detecting drowsiness using wavelet packet transform extracted time-domain features from single-channel EEG signal	39
Efficient whole brain transduction by systemic infusion of minimally purified AAV-PHP.eB	39
Determining the number of states in dynamic functional connectivity using cluster validity indexes	39
Non-invasive brain stimulation for Parkinson’s disease: Clinical evidence, latest concepts and future goals: A systematic review	39
EEG Integrated Platform Lossless (EEG-IP-L) pre-processing pipeline for objective signal quality assessment incorporating data annotation and blind source separation	38
A novel approach for automated alcoholism detection using Fourier decomposition method	37
Single-trial EEG emotion recognition using Granger Causality/Transfer Entropy analysis	37
Machine learning methods for brain network classification: Application to autism diagnosis using cortical morphological networks	36
Classification of Parkinson's disease based on multi-modal features and stacking ensemble learning	36
Neural anatomy and optical microscopy (NAOMi) simulation for evaluating calcium imaging methods	36
A novel approach to correlate the salivary exosomes and their protein cargo in the progression of cognitive impairment into Alzheimer’s disease	35
Functional network connectivity (FNC)-based generative adversarial network (GAN) and its applications in classification of mental disorders	33
Isolation, culture, and downstream characterization of primary microglia and astrocytes from adult rodent brain and spinal cord	33
Neural tissue-microelectrode interaction: Brain micromotion, electrical impedance, and flexible microelectrode insertion	32
Methods for mechanical delivery of viral vectors into rhesus monkey brain	32
Reproducibility of power spectrum, functional connectivity and network construction in resting-state EEG	32
Neural signal recording and processing in somatic neuroprosthetic applications. A review	32
Use of common average reference and large-Laplacian spatial-filters enhances EEG signal-to-noise ratios in intrinsic sensorimotor activity	31
A drug-vs-food “choice” self-administration procedure in rats to investigate pharmacological and environmental mechanisms of substance use disorders	31
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
A data-driven method to identify frequency boundaries in multichannel electrophysiology data	29
Use of the CatWalk gait analysis system to assess functional recovery in rodent models of peripheral nerve injury – a systematic review	29
Brain imaging-based machine learning in autism spectrum disorder: methods and applications	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
Constructing Multi-scale Entropy Based on the Empirical Mode Decomposition(EMD) and its Application in Recognizing Driving Fatigue	27
Diagnostic classification of autism using resting-state fMRI data improves with full correlation functional brain connectivity compared to partial correlation	27
A review of critical challenges in MI-BCI: From conventional to deep learning methods	27
On the merits of non-invasive myelin imaging in epilepsy, a literature review	27
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	26
Adaptive spike detection and hardware optimization towards autonomous, high-channel-count BMIs	26
From cell lines to pluripotent stem cells for modelling Parkinson's Disease	26
Using rAAV2-retro in rhesus macaques: Promise and caveats for circuit manipulation	26
MicroCT optimisation for imaging fascicular anatomy in peripheral nerves	26
Double diffusion encoding and applications for biomedical imaging	25
GRP-DNet: A gray recurrence plot-based densely connected convolutional network for classification of epileptiform EEG	25
Dynamics of isoflurane-induced vasodilation and blood flow of cerebral vasculature revealed by multi-exposure speckle imaging	24
Diagnosis of Alzheimer's disease based on regional attention with sMRI gray matter slices	24
The present and the future of microstructure MRI: From a paradigm shift to normal science	24
A novel method for calculating beta band burst durations in Parkinson’s disease using a physiological baseline	23
Theoretical and methodological analysis of EEG based seizure detection and prediction: An exhaustive review	23
Quantifying volume conducted potential using stimulation artefact in cortico-cortical evoked potentials	23
Motor imagery EEG decoding using manifold embedded transfer learning	23
Genetically encoded sensors towards imaging cAMP and PKA activity in vivo	22
Designing and comparing cleaning pipelines for TMS-EEG data: A theoretical overview and practical example	22
Convolutional neural networks ensemble model for neonatal seizure detection	22
Decoding olfactory stimuli in EEG data using nonlinear features: A pilot study	22
Open-source raspberry Pi-based operant box for translational behavioral testing in rodents	22

Development of a combined, sequential real-time fMRI and fNIRS neurofeedback system to enhance motor learning after stroke	22
Correcting physiological noise in whole-head functional near-infrared spectroscopy	22
A simple Ca2+-imaging approach to neural network analyses in cultured neurons	22
Improvement motor imagery EEG classification based on sparse common spatial pattern and regularized discriminant analysis	21
A kernel-based method to calculate local field potentials from networks of spiking neurons	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
Retrograde gene transfer into neural pathways mediated by adeno-associated virus (AAV)-AAV receptor interaction	20
Comparative analysis of spectral and temporal combinations in CSP-based methods for decoding hand motor imagery tasks	20
Differences in cerebral blood vasculature and flow in awake and anesthetized mouse cortex revealed by quantitative optical coherence tomography angiography	20
Removing artifacts from TMS-evoked EEG: A methods review and a unifying theoretical framework	20
Automatic sleep scoring: A deep learning architecture for multi-modality time series	20
Peripheral Focused Ultrasound Neuromodulation (pFUS)	20
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
Recording local field potential and neuronal activity with tetrodes in epileptic patients	19
Eavesdropping wires: Recording activity in axons using genetically encoded calcium indicators	19
Probing neural tissues at small scales: Recent progress of oscillating gradient spin echo (OGSE) neuroimaging in humans	19
Fiber optic sensor embedded smart helmet for real-time impact sensing and analysis through machine learning	19
Automated sleep state classification of wide-field calcium imaging data via multiplex visibility graphs and deep learning	18
Near-infrared and far-red genetically encoded indicators of neuronal activity	18
Gaussian discriminative component analysis for early detection of Alzheimer’s disease: A supervised dimensionality reduction algorithm	18
Bridging the gap: TMS-EEG from lab to clinic	18
Long-term culture of SH-SY5Y neuroblastoma cells in the absence of neurotrophins: A novel model of neuronal ageing	17
The role of neuronavigation in TMS–EEG studies: Current applications and future perspectives	17
Aging effect on head motion: A Machine Learning study on resting state fMRI data	17
A hybrid high-resolution anatomical MRI atlas with sub-parcellation of cortical gyri using resting fMRI	17
Identifying novel biomarkers with TMS-EEG – Methodological possibilities and challenges	17
Detecting acute pain signals from human EEG	17
Development and validation of chemical kindling in adult zebrafish: A simple and improved chronic model for screening of antiepileptic agents	16
Spatial extent of cortical motor hotspot in navigated transcranial magnetic stimulation	16
A review on Alzheimer’s disease classification from normal controls and mild cognitive impairment using structural MR images	16
Advances in modelling alpha-synuclein-induced Parkinson’s diseases in rodents: Virus-based models versus inoculation of exogenous preformed toxic species	16
EEG artifact rejection by extracting spatial and spatio-spectral common components	16
The blood biomarkers puzzle – A review of protein biomarkers in neurodegenerative diseases	16
Array processing of neural signals recorded from the peripheral nervous system for the classification of action potentials	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
Realistic Microstructure Simulator (RMS): Monte Carlo simulations of diffusion in three-dimensional cell segmentations of microscopy images	16
Genetically encoded sensors for Chloride concentration	16
Detection and analysis of MEG signals in occipital region with double-channel OPM sensors	16
Tracking differential activation of primary and supplementary motor cortex across timing tasks: An fNIRS validation study	15
Effects of the concentration level, eye fatigue and coffee consumption on the performance of a BCI system based on visual ERP-P300	15
Multiparametric EEG analysis of brain network dynamics during neonatal seizures	15
A radiofrequency coil to facilitate task-based fMRI of awake marmosets	15
A novel approach combining temporal and spectral features of Arabic online handwriting for Parkinson’s disease prediction	15
Validation of DREADD agonists and administration route in a murine model of sleep enhancement	15
Morphological active contour model for automatic brain tumor extraction from multimodal magnetic resonance images	15
NeuroGPU: Accelerating multi-compartment, biophysically detailed neuron simulations on GPUs	14
Visual Gait Lab: A user-friendly approach to gait analysis	14
Topological portraits of multiscale coordination dynamics	14
A vapor exposure method for delivering heroin alters nociception, body temperature and spontaneous activity in female and male rats	14
Mu rhythm separation from the mix with alpha rhythm: Principal component analyses and factor topography	14
EEG signal varies with different outcomes in comatose patients: A quantitative method of electroencephalography reactivity	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
Development of deep learning models for microglia analyses in brain tissue using DeePathology™ STUDIO	14
Blind deconvolution for spike inference from fluorescence recordings	13
A classification algorithm of an SSVEP brain-Computer interface based on CCA fusion wavelet coefficients	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
High-resolution magnetic resonance imaging-based atlases for the young and adolescent domesticated pig (Sus scrofa)	13
Deep brain stimulation in dystonia: State of art and future directions	13
Feature Selection Using Extreme Gradient Boosting Bayesian Optimization to upgrade the Classification Performance of Motor Imagery signals for BCI	13
Fascicle localisation within peripheral nerves through evoked activity recordings: A comparison between electrical impedance tomography and multi-electrode arrays	13
A review of methods for classification and recognition of ASD using fMRI data	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
Automatic coregistration of MRI and on-scalp MEG	13
Microstructure with diffusion MRI: what scale we are sensitive to?	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
TMS-EEG responses across the lifespan: Measurement, methods for characterisation and identified responses	12
A manual multiplex immunofluorescence method for investigating neurodegenerative diseases	12
µ-rhythm phase from somatosensory but not motor cortex correlates with corticospinal excitability in EEG-triggered TMS	12
Viruses in connectomics: Viral transneuronal tracers and genetically modified recombinants as neuroscience research tools	12
Decoding olfactory EEG signals for different odor stimuli identification using wavelet-spatial domain feature	12
A multi-metric approach to characterizing mouse peripheral auditory nerve function using the auditory brainstem response	12
Identification and verification of a 'true' TMS evoked potential in TMS-EEG	12
Adaptation of robust Z’ factor for assay quality assessment in microelectrode array based screening using adult dorsal root ganglion neurons	12
A hybrid method for muscle artifact removal from EEG signals	12
Virtual EEG-electrodes: Convolutional neural networks as a method for upsampling or restoring channels	12
LC–MS/MS analysis of twelve neurotransmitters and amino acids in mouse cerebrospinal fluid	12

Quantifying mitochondrial volume density in phrenic motor neurons	12
Temporal frequency joint sparse optimization and fuzzy fusion for motor imagery-based brain-computer interfaces	12
Novel method to produce a layered 3D scaffold for human pluripotent stem cell-derived neuronal cells	11
Decoding Imagined Speech and Computer Control using Brain Waves	11
Validation of an EEG seizure detection paradigm optimized for clinical use in a chronically implanted subcutaneous device	11
Functional connectivity using high density EEG shows competitive reliability and agreement across test/retest sessions	11
Focal transcranial magnetic stimulation in awake rats: Enhanced glucose uptake in deep cortical layers	11
Identification of brain structures and blood vessels by conventional ultrasound in rats	11
Virtual histology of an entire mouse brain from formalin fixation to paraffin embedding. Part 2: Volumetric strain fields and local contrast changes	11
Use of transcranial magnetic stimulation for studying the neural basis of numerical cognition: A systematic review	11
Models of dystonia: an update	11
Functional interrogation of neural circuits with virally transmitted optogenetic tools	11
Protein-retention expansion microscopy for visualizing subcellular organelles in fixed brain tissue	11
Light-field microscopy for fast volumetric brain imaging	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
Moving back in the brain to drive the field forward: Targeting neurostimulation to different brain regions in animal models of depression and neurodegeneration	11
A fisher linear discriminant analysis classifier fused with naïve Bayes for simultaneous detection in an asynchronous brain-computer interface	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
Quality assessment of anatomical MRI images from generative adversarial networks: Human assessment and image quality metrics	11
DRGquant: A new modular AI-based pipeline for 3D analysis of the DRG	11
An inhalation anaesthesia approach for neonatal mice allowing streamlined stereotactic injection in the brain	11
The impact of water changes on stress and subject variation in a zebrafish (Danio rerio) anxiety-related task	11
Fuzzy ensemble system for SSVEP stimulation frequency detection using the MLR and MsetCCA	11
The diagnosis of amnestic mild cognitive impairment by combining the characteristics of brain functional network and support vector machine classifier	11
All-optical electrophysiology in behaving animals	11
Spatial-frequency-temporal convolutional recurrent network for olfactory-enhanced EEG emotion recognition	10
A Deep Learning Approach for Automated Sleep-Wake Scoring in Pre-Clinical Animal Models	10
Source-based artifact-rejection techniques for TMS–EEG	10
Recording of spontaneous vagus nerve activity during Pentylenetetrazol-induced seizures in rats	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
Age and sex differences in primary microglia culture: A comparative study	10
Crispr/Cas-based modeling of NF2 loss in meningioma cells	10
Aptamer-modified biosensors to visualize neurotransmitter flux	10
Automated detection of subthalamic nucleus in deep brain stimulation surgery for Parkinson’s disease using microelectrode recordings and wavelet packet features	10
Measuring metabolic rate in single flies during sleep and waking states via indirect calorimetry	10
Tangential high-density electrode insertions allow to simultaneously measure neuronal activity across an extended region of the visual field in mouse superior colliculus	10
Fluorescence microendoscopy for in vivo deep-brain imaging of neuronal circuits	10
Unlocking the brain: A new method for Western blot protein detection from fixed brain tissue	10
Modular assays for the quantitative study of visually guided navigation in both flying and walking flies	10
An MRI protocol for anatomical and functional evaluation of the California sea lion brain	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
Revisiting CB1 cannabinoid receptor detection and the exploration of its interacting partners	10
Longitudinal survival analysis and two-group comparison for predicting the progression of mild cognitive impairment to Alzheimer's disease	10
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
Quantification of tissue sodium concentration in the ischemic stroke: A comparison between external and internal references for 23Na MRI	9
The reliability of two prospective cortical biomarkers for pain: EEG peak alpha frequency and TMS corticomotor excitability	9
Classification of EEG signals: An interpretable approach using functional data analysis	9
Imaging the endocannabinoid signaling system	9
Topology-guided cyclic brain connectivity generation using geometric deep learning	9
Golgi-Cox impregnation combined with fluorescence staining of amyloid plaques reveals local spine loss in an Alzheimer mouse model	9
Pseudotyped lentiviral vectors for tract-targeting and application for the functional control of selective neural circuits	9
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
ERP-WGAN: A data augmentation method for EEG single-trial detection	9
Modified middle cerebral artery occlusion model provides detailed intraoperative cerebral blood flow registration and improves neurobehavioral evaluation	9
Analytic consistency and neural correlates of peak alpha frequency in the study of pain	9
A novel 5D brain parcellation approach based on spatio-temporal encoding of resting fMRI data from deep residual learning	9
EEG rhythm based emotion recognition using multivariate decomposition and ensemble machine learning classifier	9
DDeep3M: Docker-powered deep learning for biomedical image segmentation	9
Use of viruses for interrogating viscera-specific projections in central nervous system	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
Addressing the missing data challenge in multi-modal datasets for the diagnosis of Alzheimer’s disease	9
Spectral Independent Component Analysis with noise modeling for M/EEG source separation	9
Mining naturalistic human behaviors in long-term video and neural recordings	9
A novel ex vivo, in situ method to study the human brain through MRI and histology	9
CluSem: Accurate clustering-based ensemble method to predict motor imagery tasks from multi-channel EEG data	9
Integrated 3D motion analysis with functional magnetic resonance neuroimaging to identify neural correlates of lower extremity movement	9
Nonhuman primate models of ischemic stroke and neurological evaluation after stroke	9
Real-Time Point Process Filter for Multidimensional Decoding Problems Using Mixture Models	9
A 120-target brain-computer interface based on code-modulated visual evoked potentials	9
Let's get wild: A review of free-ranging rat assays as context-enriched supplements to traditional laboratory models	8
Optimised isolation and characterisation of adult human astrocytes from neurotrauma patients	8
Integration of human whole-brain transcriptome and neuroimaging data: Practical considerations of current available methods	8
A multiscale siamese convolutional neural network with cross-channel fusion for motor imagery decoding	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
Toolkit for Oscillatory Real-time Tracking and Estimation (TORTE)	8
Methodological and analytical issues of progressive ratio schedules: Definition and scaling of breakpoint	8
Classification of patients with AD from healthy controls using entropy-based measures of causality brain networks	8
Probing machine-learning classifiers using noise, bubbles, and reverse correlation	8
A 3D cell culture approach for studying neuroinflammation	8
LIONirs: flexible Matlab toolbox for fNIRS data analysis	8
Deep active learning for interictal ictal injury continuum EEG patterns	8
Modular and state-relevant functional network connectivity in high-frequency eyes open vs eyes closed resting fMRI data	8
Spatio-Spectral CCA (SS-CCA): A novel approach for frequency recognition in SSVEP-based BCI	8
Feature optimization method for machine learning-based diagnosis of schizophrenia using magnetoencephalography	8
SimMEEG software for simulating event-related MEG and EEG data with underlying functional connectivity	8
Perfusion pressure determines vascular integrity and histomorphological quality following perfusion fixation of the brain	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
Denoising Algorithm for Event-Related Desynchronization-Based Motor Intention Recognition in Robot-assisted Stroke Rehabilitation Training with Brain-Machine Interaction	8