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    Immersive environment for creating, proofreading, and exploring skeletons of nanometric scale neural structures

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    021-030 (1).pdf
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    Type
    Conference Paper
    Authors
    Boges, Daniya
    Cali, Corrado
    Magistretti, Pierre J. cc
    Hadwiger, Markus cc
    Sicat, Ronell Barrera cc
    Agus, Marco
    KAUST Department
    Biological and Environmental Sciences and Engineering (BESE) Division
    Bioscience Program
    Computer Science Program
    Visual Computing Center (VCC)
    Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
    Date
    2019-01-01
    Permanent link to this record
    http://hdl.handle.net/10754/663943
    
    Metadata
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    Abstract
    We present a novel immersive environment for the exploratory analysis of nanoscale cellular reconstructions of rodent brain samples acquired through electron microscopy. The system is focused on medial axis representations (skeletons) of branched and tubular structures of brain cells, and it is specifically designed for: i) effective semi-automatic creation of skeletons from surface-based representations of cells and structures, ii) fast proofreading, i.e., correcting and editing of semi-automatically constructed skeleton representations, and iii) useful exploration, i.e., measuring, comparing, and analyzing geometric features related to cellular structures based on medial axis representations. The application runs in a standard PC-tethered virtual reality (VR) setup with a head mounted display (HMD), controllers, and tracking sensors. The system is currently used by neuroscientists for performing morphology studies on sparse reconstructions of glial cells and neurons extracted from a sample of the somatosensory cortex of a juvenile rat.
    Citation
    Boges, D., Calì, C., Magistretti, P. J., Hadwiger, M., Sicat, R., & Agus, M. (2019). Immersive Environment for Creating, Proofreading, and Exploring Skeletons of Nanometric Scale Neural Structures. <i>Smart Tools and Apps for Graphics - Eurographics Italian Chapter Conference</i>. https://doi.org/10.2312/STAG.20191360
    Sponsors
    This work is supported by KAUST King Abdullah University of Science and Technology KAUST-EPFL Alliance for Integrative Modeling of Brain Energy Metabolism https://www.kaust.edu.sa/en under KAUST CRG6 Grant No. 2313.
    Publisher
    Eurographics Association
    Conference/Event name
    2019 Italian Chapter Conference - Smart Tools and Apps in Computer Graphics, STAG 2019
    ISBN
    9783038681007
    DOI
    10.2312/stag.20191360
    Additional Links
    https://diglib.eg.org/handle/10.2312/stag20191360
    ae974a485f413a2113503eed53cd6c53
    10.2312/stag.20191360
    Scopus Count
    Collections
    Conference Papers; Biological and Environmental Science and Engineering (BESE) Division; Bioscience Program; Computer Science Program; Visual Computing Center (VCC); Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division

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