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      Cerebellar output neurons impair non-motor behaviors by altering development of extracerebellar connectivity

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          Abstract

          The capacity of the brain to compensate for insults during development depends on the type of cell loss, whereas the consequences of genetic mutations in the same neurons are difficult to predict. We reveal powerful compensation from outside the cerebellum when the excitatory cerebellar output neurons are ablated embryonically and demonstrate that the minimum requirement for these neurons is for motor coordination and not learning and social behaviors. In contrast, loss of the homeobox transcription factors Engrailed1/2 (EN1/2) in the cerebellar excitatory lineage leads to additional deficits in adult learning and spatial working memory, despite half of the excitatory output neurons being intact. Diffusion MRI indicates increased thalamo-cortico-striatal connectivity in En1/2 mutants, showing that the remaining excitatory neurons lacking En1/2 exert adverse effects on extracerebellar circuits regulating motor learning and select non-motor behaviors. Thus, an absence of cerebellar output neurons is less disruptive than having cerebellar genetic mutations.

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          Fiji: an open-source platform for biological-image analysis.

          Fiji is a distribution of the popular open-source software ImageJ focused on biological-image analysis. Fiji uses modern software engineering practices to combine powerful software libraries with a broad range of scripting languages to enable rapid prototyping of image-processing algorithms. Fiji facilitates the transformation of new algorithms into ImageJ plugins that can be shared with end users through an integrated update system. We propose Fiji as a platform for productive collaboration between computer science and biology research communities.
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            BORIS: a free, versatile open-source event-logging software for video/audio coding and live observations

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              GRETNA: a graph theoretical network analysis toolbox for imaging connectomics

              Recent studies have suggested that the brain’s structural and functional networks (i.e., connectomics) can be constructed by various imaging technologies (e.g., EEG/MEG; structural, diffusion and functional MRI) and further characterized by graph theory. Given the huge complexity of network construction, analysis and statistics, toolboxes incorporating these functions are largely lacking. Here, we developed the GRaph thEoreTical Network Analysis (GRETNA) toolbox for imaging connectomics. The GRETNA contains several key features as follows: (i) an open-source, Matlab-based, cross-platform (Windows and UNIX OS) package with a graphical user interface (GUI); (ii) allowing topological analyses of global and local network properties with parallel computing ability, independent of imaging modality and species; (iii) providing flexible manipulations in several key steps during network construction and analysis, which include network node definition, network connectivity processing, network type selection and choice of thresholding procedure; (iv) allowing statistical comparisons of global, nodal and connectional network metrics and assessments of relationship between these network metrics and clinical or behavioral variables of interest; and (v) including functionality in image preprocessing and network construction based on resting-state functional MRI (R-fMRI) data. After applying the GRETNA to a publicly released R-fMRI dataset of 54 healthy young adults, we demonstrated that human brain functional networks exhibit efficient small-world, assortative, hierarchical and modular organizations and possess highly connected hubs and that these findings are robust against different analytical strategies. With these efforts, we anticipate that GRETNA will accelerate imaging connectomics in an easy, quick and flexible manner. GRETNA is freely available on the NITRC website. 1
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                Author and article information

                Journal
                bioRxiv
                BIORXIV
                bioRxiv
                Cold Spring Harbor Laboratory
                2692-8205
                08 July 2024
                : 2024.07.08.602496
                Affiliations
                [1 ]Developmental Biology Program, Sloan Kettering Institute, New York 10065, NY, USA
                [2 ]Neuroscience Program, Weill Cornell Graduate School of Medical Sciences, New York 10021, NY, USA
                [3 ]Bernard and Irene Schwartz Center for Biomedical Imaging, Department of Radiology, New York University Grossman School of Medicine, New York 10016, NY, USA
                [4 ]Department of Biomedical Sciences, University of Minnesota Medical School, Duluth, MN 55812, USA
                [5 ]Center for Cerebellar Network Structure and Function in Health and Disease, University of Minnesota, Duluth, MN 55812, USA
                [6 ]Center for Neurogenetics, Brain and Mind Research Institute, Weill Cornell Medicine, New York 10021, NY 10021, USA
                [7 ]Pediatric Neurology, Department of Pediatrics, Weill Cornell Medicine, New York 10021, NY, USA
                [8 ]Weill Cornell Autism Research Program, Weill Cornell Medicine, New York 10021, NY, USA
                [9 ]Biochemistry, Cell and Molecular Biology Program, Weill Cornell Graduate School of Medical Sciences, New York 10021, NY, USA
                [10 ]Present Address: Center for Neurotechnology in Mental Health Research, Department of Biomedical Engineering, The Pennsylvania State University, University Park, PA 16801, USA
                [11 ]Present address: Center for Substance Abuse Research, Lewis Katz School of Medicine, Temple University, Philadelphia, PA 19140, USA and Department of Neural Sciences, Lewis Katz School of Medicine, Temple University, Philadelphia, PA 19140, USA
                Author notes

                Contributions

                A.S.L., A.M.R., T.M.A., D.H.H., J.Z., A.L.J. formulated experiments and analysis. A.S.L., A.G., D.N.S., Y.L., Z.L., A.K. performed experiments and anlaysis. T.M.A. and J.Z. carried out the mouse diffusion MRI experiments and anlaysis. N.V.D.M.G. provided the SepW1-Cre mice. A.S.L., T.M.A., A.M.R., and A.L.J. prepared the manuscript.

                [* ]Correspondence to: Alexandra L. Joyner, Developmental Biology Program, Sloan Kettering Institute, 1275 York Avenue, Box 511, New York, NY 10065, USA, joynera@ 123456mskcc.org
                Author information
                http://orcid.org/0000-0002-1791-375X
                http://orcid.org/0000-0002-4876-7548
                http://orcid.org/0000-0003-0740-2662
                http://orcid.org/0000-0001-7090-9605
                Article
                10.1101/2024.07.08.602496
                11257463
                39026865
                08bf6af8-8837-4efd-91ff-7bfc96a773a5

                This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License, which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator.

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