Of fractal and Fourier: A measure for local shape complexity for neurological applications
ConclusionsThe HPR index provides conceptually distinct local complexity information from the current FD standard. Future research will benefit from using these complementary measures. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 23, 2019 Category: Neuroscience Source Type: research

Developing myelin specific promoters for schwannoma gene therapy
ConclusionsWe demonstrate that of the myelin specific promoters evaluated, P0 is optimal for driving expression of transgenes in schwannoma cells. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 23, 2019 Category: Neuroscience Source Type: research

A Wireless miniScope for Deep Brain Imaging in Freely Moving Mice
ConclusionThe wireless miniScope expands the realm of possible behavioral experiments, both by minimizing the repercussions of the cable from the imaging device on the rodent’s behavior and by enabling simultaneous in vivo imaging from multiple animals. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 21, 2019 Category: Neuroscience Source Type: research

A flexible geometry for panoramic visual and optogenetic stimulation during behavior and physiology
ConclusionsThis flexible geometry enables measurements of behavioral and neural responses to panoramic stimuli. This allows moderate throughput behavioral experiments with simultaneous optogenetic manipulation, with easy comparisons between behavior and neural activity using virtually identical stimuli. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 18, 2019 Category: Neuroscience Source Type: research

Towards an efficient segmentation of small rodents brain: a short critical review
Publication date: Available online 15 May 2019Source: Journal of Neuroscience MethodsAuthor(s): Riccardo De Feo, Federico GioveAbstractOne of the most common tasks in small rodents MRI pipelines is the voxel-wise segmentation of the volume in multiple classes. While many segmentation schemes have been developed for the human brain, fewer are available for rodent MRI, often by adaptation from human neuroimaging. Common methods include atlas-based and clustering schemes. The former labels the target volume by registering one or more pre-labeled atlases using a deformable registration method, in which case the result depends ...
Source: Journal of Neuroscience Methods - May 17, 2019 Category: Neuroscience Source Type: research

Editorial Board
Publication date: 1 July 2019Source: Journal of Neuroscience Methods, Volume 322Author(s): (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 17, 2019 Category: Neuroscience Source Type: research

Dynamic Functional Connectivity Analysis of Functional MRI Based on Copula Time-Varying Correlation
Conclusions: FMRI data of 138 human participants watching a Pixar animated movie were analyzed by the proposed method based on five a priori selected brain regions in the cortex. Based on statistical group analysis results, it was discovered that (1) the correlation between the left temporoparietal junction (LTPJ) and the primary visual cortex (V1) and the correlation between the dorsal posterior cingulate cortex (dPCC) and V1 were significantly higher for older age groups (5yo–Adult) more often than for younger age groups (3yo–4yo), and (2) the right temporoparietal junction (RTPJ), LTPJ, and dPCC were signifi...
Source: Journal of Neuroscience Methods - May 15, 2019 Category: Neuroscience Source Type: research

A semi-blind online dictionary learning approach for fMRI data
ConclusionsThe semi-ODL method is potentially useful to reveal brain networks underlying various cognitive tasks and the interactions between task-related brain networks. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 12, 2019 Category: Neuroscience Source Type: research

A novel Tungsten-based fiducial marker for multi-modal brain imaging
ConclusionsThe Tungsten-based multi-modal fiducial marker is non-radioactive, easy to handle, and aids precise registration across different modalities of brain imaging. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 11, 2019 Category: Neuroscience Source Type: research

NIMH MonkeyLogic: Behavioral control and data acquisition in MATLAB
ConclusionNIMH MonkeyLogic is a versatile, powerful, up-to-date tool for controlling a wide range of experiments. It is freely available from https://monkeylogic.nimh.nih.gov/. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 8, 2019 Category: Neuroscience Source Type: research

A Versatile Macro-Based Neurohistological Image Analysis Suite for ImageJ Focused on Automated and Standardized User Interaction and Reproducible Data Output
ConclusionsThis software facilitates functionality and efficiency critical to image analysis-based neurohistological research. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 6, 2019 Category: Neuroscience Source Type: research

A Novel Methodology for Automated Differential Diagnosis of Mild Cognitive Impairment and the Alzheimer’s disease using EEG signals
ConclusionsIt was demonstrated that the proposed method, MUSIC-EWT algorithm combined with nonlinear features BD and HE, and the EPNN classifier can be employed for differential diagnosis of MCI and AD patients with an accuracy of 90.3%. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 3, 2019 Category: Neuroscience Source Type: research

Quantification of movement in normal and parkinsonian macaques using video analysis
ConclusionsThis video analysis method provides an affordable, open access platform to quantify animal movement. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 3, 2019 Category: Neuroscience Source Type: research

Editorial Board
Publication date: 1 June 2019Source: Journal of Neuroscience Methods, Volume 321Author(s): (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 1, 2019 Category: Neuroscience Source Type: research

Corrigendum to: “Sleep as a model to understand neuroplasticity and recovery after stroke: Observational, perturbational and interventional approaches” [Journal of Neuroscience Methods Volume 313, 1 February 2019, Pages 37-43]
Publication date: 1 June 2019Source: Journal of Neuroscience Methods, Volume 321Author(s): Armand Mensen, Andrea Pigorini, Laura Facchin, Cornelia Schöne, Sasha D'Ambrosio, Jasmine Jendoubi, Valeria Jaramillo, Kathrin Chiffi, Aleksandra K. Eberhard-Moscicka, Simone Sarasso, Antoine Adamantidis, René M. Müri, Reto Huber, Marcello Massimini, Claudio Bassetti (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - May 1, 2019 Category: Neuroscience Source Type: research

Primary Cell Culture of Adult Zebrafish Spinal Neurons for Electrophysiological Studies
ConclusionsThe novel primary cell culture system described here provides the first in vitro methodology available to isolate and culture neurons from the adult zebrafish spinal cord for use in electrophysiological analyses.Graphical abstract (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 25, 2019 Category: Neuroscience Source Type: research

Component-related BOLD Response to Localize Epileptic Focus Using Simultaneous EEG-fMRI Recordings at 3T
ConclusionsThis study contributes substantially to increasing the yield of EEG-fMRI and presents a realistic estimate of the neural behavior of epileptic generators, to the best of our knowledge, for the first time in the literature. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 24, 2019 Category: Neuroscience Source Type: research

EIQ: EEG based IQ test using Wavelet Packet Transform and Hierarchical Extreme Learning Machine
ConclusionA new method to measure intelligence using direct approach by classifying the EEG signals is proposed. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 24, 2019 Category: Neuroscience Source Type: research

Method to assess the mismatch between the measured and nominal parameters of transcranial magnetic stimulation devices
ConclusionThis study highlights the importance of evaluating the physical characteristics of TMS devices and protocols, and provides a method for on-site quality assessment of multiple stimulation protocols in clinical and research environments. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 21, 2019 Category: Neuroscience Source Type: research

Autoconnectivity: A New Perspective on Human Brain Function
ConclusionsAutoconnectivity is cognitive state dependent (resting-state vs. task) and mental state dependent (healthy vs. schizophrenia). The concept of autoconnectivity resembles a recurrent neural network and provides a new perspective of functional integration in the brain. These findings may have important implications for understanding of brain function in health and disease as well as for analysis of fMRI time-series. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 19, 2019 Category: Neuroscience Source Type: research

A Deformation-based Approach for Characterizing Brain Asymmetries at Different Spatial Scales of Resolution
Conclusions. Structural asymmetries can be identified in normalization deformations with a procedure that is tailored for sensitivity to structures at different spatial scales of resolution where there may be different mechanisms for the expression of asymmetry. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 16, 2019 Category: Neuroscience Source Type: research

A novel setup for 3D chasing behavior analysis in free flying flies
ConclusionsOur setup offers an opportunity to investigate kinematics and governing visual parameters of chasing behaviour in species up to the size of blowflies under a large variety of experimental conditions. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 15, 2019 Category: Neuroscience Source Type: research

A vascular-task response dependency and its application in functional imaging of brain tumors
ConclusionsThe present preliminary results demonstrate that neurovascular uncoupling known to affect the accuracy of BOLD fMRI adjacent to brain tumors may be, at least partially, overcome by incorporating an observed vaso-task dependency in the BOLD signal analysis.Graphical abstract (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 15, 2019 Category: Neuroscience Source Type: research

Studies on long term behavioural changes in group-housed rat models of brain and spinal cord injury using an automated home cage recording system
ConclusionsThis study demonstrates the practical benefits of using a non-intrusive automated home cage recording system to observe long term individual behaviour of group-housed SCI and TBI rats. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 15, 2019 Category: Neuroscience Source Type: research

Editorial Board
Publication date: 15 May 2019Source: Journal of Neuroscience Methods, Volume 320Author(s): (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 10, 2019 Category: Neuroscience Source Type: research

Standardized music therapy with and without acclimatization, to improve EEG data acquisition in young children with and without disability
ConclusionIn children under 3, MT protocols result in high rates of EEG data acquisition, decrease behaviorally-related interruptions and session acquisition time. This method is successful for typically developing children and those with cerebral palsy. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 8, 2019 Category: Neuroscience Source Type: research

In vitro Validation of in silico Identified Inhibitory Interactions
ConclusionsTogether, these results demonstrate how detailed microcircuitry can be inferred from statistical models derived from neurophysiology data. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 8, 2019 Category: Neuroscience Source Type: research

New Life for an Old Idea: Assessing Tonic Heat Pain by Means of Participant Controlled Temperature
ConclusionsPCT represents can be reliably performed using a contact heat stimulator to measure the temporal summation of pain. The standardized setup and overall good reliability of the outcome measures facilitate a sound implementation into the clinical work-up of patients with pain conditions. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 7, 2019 Category: Neuroscience Source Type: research

Data-driven derivation of natural EEG frequency components: An optimised example assessing resting EEG in healthy ageing
ConclusionsThis combination of optimised f-PCA approach and component screening procedure has wide potential in the EEG field beyond the ageing topic explored here, being applicable across an extensive range of studies using EEG oscillations to explore aspects of cognitive processing and individual differences. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 5, 2019 Category: Neuroscience Source Type: research

Unsupervised quantification of tissue immunofluorescence in animal models of multiple sclerosis – Instructions for use
ConclusionsOur results discover relevant caveats in the currently used methods of immunofluorescence analysis. The provided step-by-step instructions and open-source code are intended to serve as a framework for sensitive, unbiased immunofluorescence analysis of tissue sections in translational research. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 5, 2019 Category: Neuroscience Source Type: research

Editorial Board
Publication date: 1 May 2019Source: Journal of Neuroscience Methods, Volume 319Author(s): (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 4, 2019 Category: Neuroscience Source Type: research

Development of a Traumatic Cervical Dislocation Spinal Cord Injury Model with Residual Compression in the Rat
ConclusionsThis study has validated several novel procedural approaches and injury parameters, and provided critical details to implement in the development of a traumatic cervical dislocation SCI model with residual compression. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 4, 2019 Category: Neuroscience Source Type: research

MarmoDetector: A Novel 3D Automated System for the Quantitative Assessment of Marmoset Behavior
ConclusionMarmoDetector facilitates the rapid and accurate analysis of marmoset behavior and will enhance research on the neural basis of brain disorders. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 2, 2019 Category: Neuroscience Source Type: research

Common Spatial Pattern and Wavelet Decomposition for Motor Imagery EEG- fTCD Brain-Computer Interface
ConclusionsThe proposed system is a more accurate and faster alternative to EEG-fNIRS systems. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 2, 2019 Category: Neuroscience Source Type: research

A Teensy microcontroller-based interface for optical imaging camera control during behavioral experiments
ConclusionThe Teensy interface, consisting of a Teensy 3.2 and custom software functions, provides a temporally precise, low-cost, and flexible platform to integrate sCMOS camera control into behavioral experiments. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 2, 2019 Category: Neuroscience Source Type: research

DOSED: a deep learning approach to detect multiple sleep micro-events in EEG signal
ConclusionsResults demonstrate the versatility of this new approach and improved performance compared to the current state-of-the-art detection methods.Graphical abstract (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 2, 2019 Category: Neuroscience Source Type: research

Shady: a Software Engine for Real-Time Visual Stimulus Manipulation
ConclusionsShady simultaneously advances the functionality and performance available to scientists for rendering visual stimuli and manipulating them in real time. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - April 2, 2019 Category: Neuroscience Source Type: research

A mechanized device for mounting histological tissue sections
ConclusionsUsing our device can streamline histological processing and prove to be especially useful for a variety of tissue types as the platform was designed to accommodate different size microscope slides, and thus use for varying tissue section sizes. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 27, 2019 Category: Neuroscience Source Type: research

A Novel Serum Free Primary Astrocyte Culture Method that Mimic Quiescent Astrocyte Phenotype
ConclusionThis media provides a novel method for studying astrocytes functions in vitro under physiological and pathological conditions. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 21, 2019 Category: Neuroscience Source Type: research

A method for building a genome-connectome bipartite graph model
Publication date: Available online 19 March 2019Source: Journal of Neuroscience MethodsAuthor(s): Qingbao Yu, Jiayu Chen, Yuhui Du, Jing Sui, Eswar Damaraju, Jessica A. Turner, Theo G.M. van Erp, Fabio Macciardi, Aysenil Belger, Judith M. Ford, Sarah McEwen, Daniel H. Mathalon, Bryon A. Mueller, Adrian Preda, Jatin Vaidya, Godfrey D. Pearlson, Vince D. CalhounAbstractIt has been widely shown that genomic factors influence both risk for schizophrenia and variation in functional brain connectivity. Moreover, schizophrenia is characterized by disrupted brain connectivity. In this work, we proposed a genome-connectome bipartit...
Source: Journal of Neuroscience Methods - March 20, 2019 Category: Neuroscience Source Type: research

Editorial Board
Publication date: 15 April 2019Source: Journal of Neuroscience Methods, Volume 318Author(s): (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 17, 2019 Category: Neuroscience Source Type: research

Unsupervised quantification of tissue immunofluorescence in animal models of multiple sclerosis - instructions for use
ConclusionsOur results discover relevant caveats in the currently used methods of immunofluorescence analysis. The provided step-by-step instructions and open-source code are intended to serve as a framework for sensitive, unbiased immunofluorescence analysis of tissue sections in translational research. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 14, 2019 Category: Neuroscience Source Type: research

Methods and Models in Alzheimer’s Disease
Publication date: Available online 11 March 2019Source: Journal of Neuroscience MethodsAuthor(s): Bettina Platt (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 12, 2019 Category: Neuroscience Source Type: research

A simple method to study motor and non-motor behaviors in adult zebrafish
Publication date: Available online 11 March 2019Source: Journal of Neuroscience MethodsAuthor(s): Velanganni Selvaraj, Hemagowri Venkatasubramanian, K. Ilango, Kirankumar SanthakumarGraphical abstract (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 12, 2019 Category: Neuroscience Source Type: research

Long term reliability of nociceptive withdrawal reflex thresholds
ConclusionsThe NWR-T upholds reliable measurements over a longer period of time and seems to be a stable measure for pain condition. Reliability estimations, EMG recordings, and subject’s rating show stimulation at the sole of the foot could be the better choice. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 12, 2019 Category: Neuroscience Source Type: research

ReStore: a wireless peripheral nerve stimulation system
ConclusionsThe results from testing the performance and safety of the ReStore system establish its potential to advance the field of peripheral neuromodulation. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 7, 2019 Category: Neuroscience Source Type: research

Comparative study of extracellular recording methods for analysis of afferent sensory information: empirical modeling, data analysis and interpretation
ConclusionsThis comparative study reveals a close relationship between the electrophysiological techniques and the processing methods necessary to extract sensory information. This relationship is the result of maximizing the extraction of information from recordings of sensory activity. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 7, 2019 Category: Neuroscience Source Type: research

Evaluating the applicability of mouse SINEs as an alternative normalization approach for RT-qPCR in brain tissue of the APP23 model for Alzheimer’s disease
ConclusionsAlthough B elements are suitable as an alternative normalization strategy in the hippocampus, they do not represent a universal normalization approach in the APP23 model. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 7, 2019 Category: Neuroscience Source Type: research

Synchrotron XRF imaging of Alzheimer’s disease basal ganglia reveals linear dependence of high-field magnetic resonance microscopy on tissue iron concentration
ConclusionThe results at 9.4 T are in excellent quantitative agreement with predictions from experiments performed at lower magnetic fields.Graphical abstract (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 7, 2019 Category: Neuroscience Source Type: research

Neurofilament-histomorphometry comparison in the evaluation of unmyelinated axon regeneration following peripheral nerve injury: an alternative to electron microscopy
ConclusionsThe neurofilament staining method correlates with electron microscopy estimates of the same nerve sections. It is useful for the efficient counting of unmyelinated axons in the regenerating peripheral nerve and can be used by laboratories that do not have access to EM facilities. (Source: Journal of Neuroscience Methods)
Source: Journal of Neuroscience Methods - March 7, 2019 Category: Neuroscience Source Type: research