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Register a new userDemixed shared component analysis of neural population data from multiple brain areas
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Recent advances in neuroscience data acquisition allow for the simultaneous recording of large populations of neurons across multiple brain areas while subjects perform complex cognitive tasks. Interpreting these data requires us to index how task-relevant information is shared across brain regions, but this is often confounded by the mixing of different task parameters at the single neuron level. Here, inspired by a method developed for a single brain area, we introduce a new technique for demixing variables across multiple brain areas, called demixed shared component analysis (dSCA). dSCA decomposes population activity into a few components, such that the shared components capture the maximum amount of shared information across brain regions while also depending on relevant task parameters. This yields interpretable components that express which variables are shared between different brain regions and when this information is shared across time. To illustrate our method, we reanalyze two datasets recorded during decision-making tasks in rodents and macaques. We find that dSCA provides new insights into the shared computation between different brain areas in these datasets, relating to several different aspects of decision formation.
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Multi-regional interaction among neuronal populations underlies the brains processing of rich sensory information in our daily lives. Recent neuroscience and neuroimaging studies have increasingly used naturalistic stimuli and experimental design to identify such realistic sensory computation in the brain. However, existing methods for cross-areal interaction analysis with dimensionality reduction, such as reduced-rank regression and canonical correlation analysis, have limited applicability and interpretability in naturalistic settings because they usually do not appropriately demix neural interactions into those associated with different types of task parameters or stimulus features (e.g., visual or audio). In this paper, we develop a new method for cross-areal interaction analysis that uses the rich task or stimulus parameters to reveal how and what types of information are shared by different neural populations. The proposed neural demixed shared component analysis combines existing dimensionality reduction methods with a practical neural network implementation of functional analysis of variance with latent variables, thereby efficiently demixing nonlinear effects of continuous and multimodal stimuli. We also propose a simplifying alternative under the assumptions of linear effects and unimodal stimuli. To demonstrate our methods, we analyzed two human neuroimaging datasets of participants watching naturalistic videos of movies and dance movements. The results demonstrate that our methods provide new insights into multi-regional interaction in the brain during naturalistic sensory inputs, which cannot be captured by conventional techniques.
The cerebral cortex is composed of multiple cortical areas that exert a wide variety of brain functions. Although human brain neurons are genetically and areally mosaic, the three-dimensional structural differences between neurons in different brain areas or between the neurons of different individuals have not been delineated. Here, we report a nanometer-scale geometric analysis of brain tissues of the superior temporal gyrus of 4 schizophrenia and 4 control cases by using synchrotron radiation nanotomography. The results of the analysis and a comparison with results for the anterior cingulate cortex indicated that 1) neuron structures are dissimilar between brain areas and that 2) the dissimilarity varies from case to case. The structural diverseness was mainly observed in terms of the neurite curvature that inversely correlates with the diameters of the neurites and spines. The analysis also revealed the geometric differences between the neurons of the schizophrenia and control cases, suggesting that neuron structure is associated with brain function. The area dependency of the neuron structure and its diverseness between individuals should represent the individuality of brain functions.
Neural population activity is theorized to reflect an underlying dynamical structure. This structure can be accurately captured using state space models with explicit dynamics, such as those based on recurrent neural networks (RNNs). However, using recurrence to explicitly model dynamics necessitates sequential processing of data, slowing real-time applications such as brain-computer interfaces. Here we introduce the Neural Data Transformer (NDT), a non-recurrent alternative. We test the NDTs ability to capture autonomous dynamical systems by applying it to synthetic datasets with known dynamics and data from monkey motor cortex during a reaching task well-modeled by RNNs. The NDT models these datasets as well as state-of-the-art recurrent models. Further, its non-recurrence enables 3.9ms inference, well within the loop time of real-time applications and more than 6 times faster than recurrent baselines on the monkey reaching dataset. These results suggest that an explicit dynamics model is not necessary to model autonomous neural population dynamics. Code: https://github.com/snel-repo/neural-data-transformers
Obsessive-compulsive disorder (OCD) is a common psychiatric disorder with a lifetime prevalence of 2-3 percent. Recently, brain activity in the resting state is gathering attention as a new means of exploring altered functional connectivity in psychiatric disorders. Although previous resting-state functional magnetic resonance imaging studies investigated neurobiological abnormalities of patients with OCD, there are concerns that should be addressed. One concern is the validity of the hypothesis employed. Most studies used seed-based analysis of the fronto-striatal circuit, despite the potential for abnormalities in other regions. A hypothesis-free study is a promising approach in such a case, while it requires researchers to handle a dataset with large dimensions. Another concern is the reliability of biomarkers derived from a single dataset, which may be influenced by cohort-specific features. Here, by employing a recently developed machine-learning algorithm to avoid these concerns, we identified the first OCD biomarker that is generalized to an external dataset. We also demonstrated that the functional connectivities that contributed to the classification were widely distributed rather than locally constrained. Our generalizable classifier has the potential not only to deepen our understanding of the abnormal neural substrates of OCD but also to find use in clinical applications.
The ability of the organism to distinguish between various stimuli is limited by the structure and noise in the population code of its sensory neurons. Here we infer a distance measure on the stimulus space directly from the recorded activity of 100 neurons in the salamander retina. In contrast to previously used measures of stimulus similarity, this neural metric tells us how distinguishable a pair of stimulus clips is to the retina, given the noise in the neural population response. We show that the retinal distance strongly deviates from Euclidean, or any static metric, yet has a simple structure: we identify the stimulus features that the neural population is jointly sensitive to, and show the SVM-like kernel function relating the stimulus and neural response spaces. We show that the non-Euclidean nature of the retinal distance has important consequences for neural decoding.
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