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      Neuronal timescales are functionally dynamic and shaped by cortical microarchitecture

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          Abstract

          Complex cognitive functions such as working memory and decision-making require information maintenance over seconds to years, from transient sensory stimuli to long-term contextual cues. While theoretical accounts predict the emergence of a corresponding hierarchy of neuronal timescales, direct electrophysiological evidence across the human cortex is lacking. Here, we infer neuronal timescales from invasive intracranial recordings. Timescales increase along the principal sensorimotor-to-association axis across the entire human cortex, and scale with single-unit timescales within macaques. Cortex-wide transcriptomic analysis shows direct alignment between timescales and expression of excitation- and inhibition-related genes, as well as genes specific to voltage-gated transmembrane ion transporters. Finally, neuronal timescales are functionally dynamic: prefrontal cortex timescales expand during working memory maintenance and predict individual performance, while cortex-wide timescales compress with aging. Thus, neuronal timescales follow cytoarchitectonic gradients across the human cortex and are relevant for cognition in both short and long terms, bridging microcircuit physiology with macroscale dynamics and behavior.

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          The human brain can both quickly react to a fleeting sight, like a changing traffic light, and slowly integrate complex information to form a long-term plan. To mirror these requirements, how long a neuron can be activated for – its ‘timescale’ – varies greatly between cells.

          A range of timescales has been identified in animal brains, by measuring single neurons at a few different locations. However, a comprehensive study of this property in humans has been hindered by technical and ethical concerns. Without this knowledge, it is difficult to understand the factors that may shape different timescales, and how these can change in response to environmental demands.

          To investigate this question, Gao et al. used a new computational method to analyse publicly available datasets and calculate neuronal timescales across the human brain. The data were produced using a technique called invasive electrocorticography, where electrodes placed directly on the brain record the total activity of many neurons. This allowed Gao et al. to examine the relationship between timescales and brain anatomy, gene expression, and cognition.

          The analysis revealed a continuous gradient of neuronal timescales between areas that require neurons to react quickly and those relying on long-term activity. ‘Under the hood’, these timescales were associated with a number of biological processes, such as the activity of genes that shape the nature of the connections between neurons and the amount of proteins that let different charged particles in and out of cells. In addition, the timescales could be flexible: they could lengthen when areas specialised in working memory were actively maintaining information, or shorten with age across many areas of the brain. Ultimately, the technique and findings reported by Gao et al. could have useful applications in the clinic, using neuronal timescale to better understand brain disorders and pinpoint their underlying causes.

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          SciPy 1.0: fundamental algorithms for scientific computing in Python

          SciPy is an open-source scientific computing library for the Python programming language. Since its initial release in 2001, SciPy has become a de facto standard for leveraging scientific algorithms in Python, with over 600 unique code contributors, thousands of dependent packages, over 100,000 dependent repositories and millions of downloads per year. In this work, we provide an overview of the capabilities and development practices of SciPy 1.0 and highlight some recent technical developments.
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            A multi-modal parcellation of human cerebral cortex

            Understanding the amazingly complex human cerebral cortex requires a map (or parcellation) of its major subdivisions, known as cortical areas. Making an accurate areal map has been a century-old objective in neuroscience. Using multi-modal magnetic resonance images from the Human Connectome Project (HCP) and an objective semi-automated neuroanatomical approach, we delineated 180 areas per hemisphere bounded by sharp changes in cortical architecture, function, connectivity, and/or topography in a precisely aligned group average of 210 healthy young adults. We characterized 97 new areas and 83 areas previously reported using post-mortem microscopy or other specialized study-specific approaches. To enable automated delineation and identification of these areas in new HCP subjects and in future studies, we trained a machine-learning classifier to recognize the multi-modal ‘fingerprint’ of each cortical area. This classifier detected the presence of 96.6% of the cortical areas in new subjects, replicated the group parcellation, and could correctly locate areas in individuals with atypical parcellations. The freely available parcellation and classifier will enable substantially improved neuroanatomical precision for studies of the structural and functional organization of human cerebral cortex and its variation across individuals and in development, aging, and disease.
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              Genome-wide atlas of gene expression in the adult mouse brain.

              Molecular approaches to understanding the functional circuitry of the nervous system promise new insights into the relationship between genes, brain and behaviour. The cellular diversity of the brain necessitates a cellular resolution approach towards understanding the functional genomics of the nervous system. We describe here an anatomically comprehensive digital atlas containing the expression patterns of approximately 20,000 genes in the adult mouse brain. Data were generated using automated high-throughput procedures for in situ hybridization and data acquisition, and are publicly accessible online. Newly developed image-based informatics tools allow global genome-scale structural analysis and cross-correlation, as well as identification of regionally enriched genes. Unbiased fine-resolution analysis has identified highly specific cellular markers as well as extensive evidence of cellular heterogeneity not evident in classical neuroanatomical atlases. This highly standardized atlas provides an open, primary data resource for a wide variety of further studies concerning brain organization and function.
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                Author and article information

                Contributors
                Role: Reviewing Editor
                Role: Senior Editor
                Journal
                eLife
                Elife
                eLife
                eLife
                eLife Sciences Publications, Ltd
                2050-084X
                23 November 2020
                2020
                : 9
                : e61277
                Affiliations
                [1 ]Department of Cognitive Science, University of California, San Diego La JollaUnited States
                [2 ]Section Computational Cognitive Neuroscience, Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf HamburgGermany
                [3 ]Center for Brain and Cognition, Computational Neuroscience Group, Universitat Pompeu Fabra BarcelonaSpain
                [4 ]Halıcıoğlu Data Science Institute, University of California, San Diego La JollaUnited States
                [5 ]Neurosciences Graduate Program, University of California, San Diego La JollaUnited States
                [6 ]Kavli Institute for Brain and Mind, University of California, San Diego La JollaUnited States
                Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society Germany
                University of Texas at Austin United States
                Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society Germany
                Author information
                https://orcid.org/0000-0001-5916-6433
                http://orcid.org/0000-0002-3142-7248
                https://orcid.org/0000-0001-9561-3085
                http://orcid.org/0000-0003-1640-2525
                Article
                61277
                10.7554/eLife.61277
                7755395
                33226336
                9a6aa42b-41de-4de6-a35d-2ae3a81e43fa
                © 2020, Gao et al

                This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.

                History
                : 21 July 2020
                : 22 November 2020
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100000038, Natural Sciences and Engineering Research Council of Canada;
                Award ID: CGSD3-488052-2016
                Award Recipient :
                Funded by: Katzin Prize;
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100005156, Alexander von Humboldt Foundation;
                Award ID: Humboldt Fellowship
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100005156, Alexander von Humboldt Foundation;
                Award ID: Feodor Lynen Fellowship
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100000879, Alfred P. Sloan Foundation;
                Award ID: FG-2015-66057
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100001391, Whitehall Foundation;
                Award ID: 2017-12-73
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100000001, National Science Foundation;
                Award ID: BCS-1736028
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100000002, National Institutes of Health;
                Award ID: R01GM134363-01
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100012424, School of Medicine, UC San Diego;
                Award ID: Shiley-Marcos Alzheimer's Disease Research Center
                Award Recipient :
                Funded by: Halicioglu Data Science Institute Fellowship;
                Award Recipient :
                The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
                Categories
                Research Article
                Computational and Systems Biology
                Neuroscience
                Custom metadata
                Invasive electrophysiological recording measures neuronal transmembrane current timescales across human cortex, which lengthens from sensory to association regions, follows variations in ion channel expressions, and alters with behavior and aging.

                Life sciences
                neuronal timescales,cortical gradients,functional specialization,transcriptomics,spectral analysis,human,rhesus macaque

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