Fiber clustering methods are typically used in brain research to study the organization of white matter bundles from large diffusion MRI tractography datasets. These methods enable exploratory bundle inspection using visualization and other methods that require identifying brain white matter structures in individuals or a population. Some applications, such as real-time visualization and inter-subject

Image interpolation is an essential process for image processing and computer graphics in wide applications to medical imaging. For image interpolation used in medical diagnosis, the two-dimensional (2D) to three-dimensional (3D) transformation can significantly reduce human error, leading to better decisions. This research proposes the type-2 fuzzy neural networks method which is a hybrid of the fuzzy

The description of neural dynamics, in terms of precise characterizations of action potential timings and shape and voltage related measures, is fundamental for a deeper understanding of the neural code and its information content. Not only such measures serve the scientific questions posed by experimentalists but are increasingly being used by computational neuroscientists for the construction of

Gait analysis in cats and other animals is generally performed with custom-made or commercially developed software to track reflective markers placed on bony landmarks. This often involves costly motion tracking systems. However, deep learning, and in particular DeepLabCutTM (DLC), allows motion tracking without requiring placing reflective markers or an expensive system. The purpose of this study

In terms of seizure prediction, how to fully mine relational data information among multiple channels of epileptic EEG? This is a scientific research subject worthy of further exploration. Recently, we propose a multi-dimensional enhanced seizure prediction framework, which mainly includes information reconstruction space, graph state encoder, and space-time predictor. It takes multi-channel spatial

We present Clinica (www.clinica.run), an open-source software platform designed to make clinical neuroscience studies easier and more reproducible. Clinica aims for researchers to (i) spend less time on data management and processing, (ii) perform reproducible evaluations of their methods, and (iii) easily share data and results within their institution and with external collaborators. The core of

Neuromorphology is crucial to identifying neuronal subtypes and understanding learning. It is also implicated in neurological disease. However, standard morphological analysis focuses on macroscopic features such as branching frequency and connectivity between regions, and often neglects the internal geometry of neurons. In this work, we treat neuron trace points as a sampling of differentiable curves

The acquisition of high quality maps of gene expression in the rodent brain is of fundamental importance to the neuroscience community. The generation of such datasets relies on registering individual gene expression images to a reference volume, a task encumbered by the diversity of staining techniques employed, and by deformations and artifacts in the soft tissue. Recently, deep learning models have

In recent years, the automotive field has been changed by the accelerated rise of new technologies. \textcolor{red}{Specifically, autonomous driving has revolutionized the car manufacturer's approach to design the advanced systems compliant to vehicle environments.} As a result, there is a growing demand for the development of intelligent technology in order to make modern vehicles safer and smarter

With the ageing population, stroke has gradually become the leading cause of death and disability among adults. It is necessary to verify whether multi-delay pseudo-continuous arterial spin labelling (pCASL) MRI can be used as a standard neuroimaging protocol in the patients with ischemic stroke. We aimed to investigate the clinical utility of multi-delay pCASL for evaluating cerebral perfusion in

Despite the remarkable similarities between convolutional neural networks (CNN) and the human brain, CNNs still fall behind humans in many visual tasks, indicating that there still exist considerable differences between the two systems. Here, we leverage adversarial noise (AN) and adversarial interference (AI) images to quantify the consistency between neural representations and perceptual outcomes

Spinal cord injury(SCI) is a common but severe disease caused by traffic accidents. Coronary atherosclerotic heart disease（CHD） caused by dyslipidemia is known as the leading cause of death in patients with SCI. However, our quantitative analysis showed that the cholesterol and lipoprotein concentrations in peripheral blood did not change significantly within 48 hours after SCI. Due to the presence

Independent component analysis is a multivariate approach for analyzing brain imaging data. In the field of functional near-infrared spectroscopy (fNIRS), its promising effectiveness has been shown in both removing noise and extracting components of interest. However, the application of ICA remains challenging due to its complexity in usage, and a public-available, easy-to-use toolbox dedicated to

Keywords: neuroimaging1, cortical thickness2, tissue deformation3, statistical analysis4, sensitivity5, specificity6, population simulation7, repeated tests8.In recent years, the replicability of neuroimaging findings has become an important concern to the research community. Neuroimaging pipelines consist of myriad numerical procedures, which can have a cumulative effect on the accuracy of findings

Motivated by the challenge of investigating the reproducibility of spiking neural network simulations, we have developed the Arpra library: an open source C library for arbitrary precision range analysis based on the mixed Interval Arithmetic (IA)/Affine Arithmetic (AA) method. Arpra builds on this method by implementing a novel mixed trimmed IA/AA, in which the error terms of AA ranges are minimised

We implemented a deep learning (DL) algorithm for the 3-dimensional segmentation of perivascular spaces (PVSs) in deep white matter (DWM) and basal ganglia (BG). This algorithm is based on an autoencoder and a U-shaped network (U-net), and was trained and tested using T1-weighted magnetic resonance imaging (MRI) data from a large database of 1,832 healthy young adults. An important feature of this

MIIND is a software platform for easily and efficiently simulating the behaviour of interacting populations of neurons governed by any 1D or 2D dynamical system. The simulator is entirely agnostic to the underlying neuron model of each population and provides an intuitive method for controlling the amount of noise which can significantly affect the overall behaviour. A network of populations can be

Stroke is one of the leading causes of death and disability worldwide. Reducing this disease burden through drug discovery and evaluation of stroke patient outcomes requires broader characterization of stroke pathophysiology, yet the underlying biologic and genetic factors contributing to outcomes are largely unknown. Remedying this critical knowledge gap requires deeper phenotyping, including large-scale

The recent and growing focus on reproducibility in neuroimaging studies has led many major academic centers to use cloud-based imaging databases for storing, analyzing, and sharing complex imaging data. Flywheel is one such database platform that offers easily accessible, large-scale data management, along with a framework for reproducible analyses through containerized pipelines. The Brain Imaging

Calculations of entropy of a signal or mutual information between two variables are valuable analytical tools in the field of neuroscience. They can be applied to all types of data, capture nonlinear interactions and are model independent. Yet the limited size and number of recordings one can collect in a series of experiments makes their calculation highly prone to sampling bias. Mathematical methods

Accurate neuron morphologies are paramount for computational model simulations of realistic neural responses. Over the last decade, the online repository NeuroMorpho.Org has collected over 140,000 available neuron morphologies to understand brain function and promote interaction between experimental and computational research. Neuron morphologies describe spatial aspects of neural structure; however

Dynamic causal modeling (DCM) is a widely used tool to estimate the effective connectivity of specified models of a brain network. Finding the model explaning measure data is one of the most important outstanding problems in Bayesian modeling. Using heuristic model search algorithms enables us to find an optimal model without having to define a model set a priori. However, the development of such methods

Aim: In PET imaging, the different types of radiotracers and accumulations, as well as the diversity of disease patterns, make the analysis of molecular imaging data acquired in vivo challenging. Here, we evaluate and validate a semi-automated MRI template-based data analysis tool that allows preclinical PET images to be aligned to a self-created PET template. Based on the user-defined volume-of-interest

Childhood medulloblastoma (MB) is a threatening malignant tumor affecting children all over the globe. It is the foremost common pediatric brain tumor causing death. The early and accurate classification of childhood MB and its classes is of great importance to help doctors choose the suitable treatment and observation plan, avoid tumor progression, and lower death rates. The current gold standard

The non-invasive whole-brain scans endure the aptitude to succor for diagnosing neuropsychiatric disorder diseases such as autism, dementia, and brain cancer. The assessable analysis for autism spectrum disorders (ASD) is rationally challenging due to the limitations of publicly available datasets. For diagnostic or prognostic tools, functional Magnetic Resonance Imaging (fMRI) exposed affirmation

Pineal gland is a midline structure of the brain, and is considered as the main part of the epithalamus. There are numerous reports on the facilitatory role of this area for brain function; hormone secretion and its role in sleep cycle are the major reports. However, rare reports are available on the direct role of this structure in brain cognition and in information processing. One suggestion for

The Affect-tag solution measures physiological signals to deliver indicators derived from cognitive science. In order to provide the most accurate and effective results, a database of electrodermal activity signals acquired using the Affect-tag A1 band was created. An experimental paradigm was designed to measure action-taking, autonomic regulation, cognitive load, emotions and stress, affects, and

This article extends a recent methodological workflow for creating realistic and computationally efficient neuron models whilst capturing essential aspects of single-neuron dynamics. We overcome the intrinsic limitations of the extant optimization methods by proposing an alternative optimization component based on multimodal algorithms. This approach can natively explore a diverse population of neuron

Due to the point-like nature of neuronal spiking, efficient neural network simulators often employ event-based simulation schemes for synapses. Yet many types of synaptic plasticity rely on the membrane potential of the postsynaptic cell as a third factor in addition to pre- and postsynaptic spike times. In some learning rules membrane potentials not only influence synaptic weight changes at the time

The cerebral cortex is fundamental to the functioning of the mind and body. In vivo cortical morphology can be studied through magnetic resonance imaging in several ways, including reconstructing surface-based models of the cortex. However, existing software for surface-based statistical analyses cannot accommodate “big data” or commonly-used statistical methods such as the imputation of missing data

Biological neurons can be modeled with different levels of biophysical/biochemical details. The accuracy with which a model reflects the actual physiological processes and ultimately the information function of a neuron, can range from very detailed to a schematic phenomenological representation. This range exists due to the common problem: one needs to find an optimal trade-off between the level of

Nowadays, the recognition of emotions in people with sensory disabilities still represents a challenge due to the difficulty to generalize and model the set of brain signals. In recent years, the technology that has been used to study a person's behaviour and emotions based on brain signals is the Brain-Computer Interface. Although previous works have already proposed the classification of emotions

Abstract Aim: The objective of this work was to demonstrate the usefulness of a novel statistical method to study the impact of transcranial magnetic stimulation (TMS) on brain connectivity in patients with depression using different stimulation protocols, i.e., 1 Hz repetitive TMS over the right dorsolateral prefrontal cortex (DLPFC) (protocol G1), 10 Hz repetitive TMS over the left DLPFC (G2), and

As multielectrode array technology increases in popularity, accessible analytical tools become necessary. Simultaneous recordings from multiple neurons may produce huge amounts of information. Traditional tools based on classical statistics are either insufficient to analyse multiple spike trains or sophisticated and expensive in computing terms. In this communication, we put to the test the idea that

More than half of the Top 10 supercomputing sites worldwide use GPU accelerators and they are becoming ubiquitous in workstations and edge computing devices. GeNN is a C++ library for generating efficient spiking neural network simulation code for GPUs. However, until now, the full flexibility of GeNN could only be harnessed by writing model descriptions and simulation code in C++. Here we present

Despite the acceleration of knowledge and data accumulation in neuroscience over the last years, the highly prevalent neurodegenerative disease of AD remains a growing problem. Alzheimer's Disease (AD) is the most common cause of dementia and represents the most prevalent neurodegenerative disease. For AD, disease-modifying treatments are presently lacking, and the understanding of disease mechanisms

Many articles have used voice analysis to detect Parkinson's disease (PD), but few have focused on the early stages of the disease and the gender effect. In this article, we have adapted the latest speaker recognition system, called x-vectors, in order to detect PD at an early stage using voice analysis. X-vectors are embeddings extracted from Deep Neural Networks (DNNs), which provide robust speaker

Pyramidal neurons are the most common neurons in the cerebral cortex. Understanding how they differ between species is a key challenge in neuroscience. We compared human temporal cortex and mouse visual cortex pyramidal neurons from the Allen Cell Types Database in terms of their electrophysiology and dendritic morphology. We found that, among other differences, human pyramidal neurons had a higher

Studying brain function is a challenging task. In the past, we can only study brain anatomical structure postmortem or infer brain function from clinical data of patient with brain injury. Nowadays technology, such as functional magnetic resonance imaging (fMRI), enable non-invasive brain activity observation. Several approaches have been proposed to interpret brain activity data. Brain connectivity

We present a framework for the topological and semantic assembly of multiscale physiology route maps. The framework, called ApiNATOMY, consists of a knowledge representation (KR) model and a set of knowledge management (KM) tools. Using examples of ApiNATOMY route maps, we present a KR format that is suitable for the analysis and visualization by KM tools. The conceptual KR model provides a simple

Recently, several deep learning methods have been applied to decoding in task fMRI, and their advantages have been exploited in a variety of ways. However, this paradigm is sometimes problematic, due to the difficulty of applying deep learning to high-dimensional data and small sample size conditions. The difficulties in gathering a large amount of data to develop predictive machine learning models

The early detection of mild cognitive impairment (MCI) has become a priority in Alzheimer’s disease (AD) research since it is a transition phase between normal aging and dementia. However, information regarding MCI and AD is scattered in disparate formats and standards generated by different technologies, which makes it difficult to work with them manually. Ontologies have emerged as a solution to

Neuronal excitation and inhibition occur in the brain at the same time, and brain activation reflects changes in the sum of excitation and inhibition. This principle has been well-established in lower-level sensory systems, including vision and touch, based on animal studies. However, it is unclear how the somatosensory system processes the balance between excitation and inhibition. In the present

WISDoM (Wishart Distributed Matrices) is a framework for the quantification of deviation of symmetric positive-definite matrices associated with experimental samples, such as covariance or correlation matrices, from expected ones governed by the Wishart distribution. WISDoM can be applied to tasks of supervised learning, like classification, in particular when such matrices are generated by data of

This work presents and evaluates a 12-electrode intracranial electroencephalography system developed at the National Institute of Mental Health (Klecany, Czech Republic) in terms of an electrical source imaging (ESI) technique in rats. The electrode system was originally designed for translational research purposes. This study demonstrates that it is also possible to use this well-established system

Here we summarize recent progress in machine learning model for diagnosis of Autism Spectrum Disorder (ASD) and Attention-deficit/Hyperactivity Disorder (ADHD). We outline and describe the machine-learning, especially deep-learning, techniques that are suitable for addressing research questions in this domain, pitfalls of the available methods, as well as future directions for the field. We envision

1 Swartz Center for Computational Neuroscience, Institute for Neural Computation, University of California San Diego, La Jolla, CA, United States, Developmental and Behavioral Pediatrics, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH, United States, Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, United States, Divisions of Child and Adolescent

Excessive glucocorticoids (GC) may lead to the aggravation of several basic diseases including myopia, due to plasma hormone imbalances associated with the hypothalamic–pituitary–adrenal axis (HPAA). Electroacupuncture (EA) is an effective therapeutic method to treat many diseases, although it remains unclear whether EA at acupoints on the foot or back would be effective in treating eye diseases. It

The popularity of mesoscopic whole-brain imaging techniques has increased dramatically, but these techniques generate teravoxel-sized volumetric image data. Visualizing or interacting with these massive data is both necessary and essential in the bioimage analysis pipeline; however, due to their size, researchers have difficulty using typical computers to process them. The existing solutions do not

In studies of cognitive neuroscience, multivariate pattern analysis (MVPA) is widely used as it offers richer information than traditional univariate analysis. Representational similarity analysis (RSA), as one method of MVPA, has become an effective decoding method based on neural data by calculating the similarity between different representations in the brain under different conditions. Moreover

Understanding how humans evaluate credibility is an important scientific question in the era of fake news. Source credibility is among the most important aspects of credibility evaluations. One of the most direct ways to understand source credibility is to use measurements of brain activity of humans performing credibility evaluations. Nevertheless, source credibility has never been investigated using

Purpose: The clinical diagnosis of aorta coarctation (CoA) constitutes a challenge, which is usually tackled by applying the peak systolic pressure gradient (PSPG) method. Recent advances in computational fluid dynamics (CFD) have suggested that multi-detector computed tomography angiography (MDCTA)-based CFD can serve as a non-invasive PSPG measurement. The aim of this study was to validate a new

Methods by which to achieve non-invasive deep brain stimulation via temporally interfering with electric fields have been proposed, but the precision of the positioning of the stimulation and the reliability and stability of the outputs require improvement. In this study, a temporally interfering electrical stimulator was developed based on a neuromodulation technique using the interference modulation

The traditional P300 speller system uses the flashing row or column spelling paradigm. However, the classification accuracy and information transfer rate of the P300 speller are not adequate for real-world application. To improve the performance of the P300 speller, we devised a new spelling paradigm in which the flashing row or column of a virtual character matrix is covered by a translucent green

Recently, machine learning methods have gained lots of attention from researchers seeking to analyze brain images such as Resting-State Functional Magnetic Resonance Imaging (rs-fMRI) to obtain a deeper understanding of the brain and such related diseases, for example, Alzheimer's disease. Finding the common patterns caused by a brain disorder through analysis of the functional connectivity (FC) network

Research on undersampled magnetic resonance image (MRI) reconstruction can increase the speed of MRI imaging and reduce patient suffering. In this paper, an undersampled MRI reconstruction method based on Generative Adversarial Networks with the Self-Attention mechanism and the Relative Average discriminator (SARA-GAN) is proposed. In our SARA-GAN, the relative average discriminator theory is applied