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Título: | Synaptic cleft segmentation in non-isotropic volume electron microscopy of the complete drosophila brain |
Autor: | Heinrich, Larissa; Funke, Jan CSIC ORCID; Pape, Constantin; Nunez-Iglesias, Juan; Saalfeld, Stephan | Fecha de publicación: | sep-2018 | Editor: | Springer Nature | Citación: | Medical Image Computing and Computer Assisted Intervention – MICCAI 2018: 317-325 (2018) | Serie: | Lecture Notes in Computer Science 11071 |
Resumen: | Neural circuit reconstruction at single synapse resolution is increasingly recognized as crucially important to decipher the function of biological nervous systems. Volume electron microscopy in serial transmission or scanning mode has been demonstrated to provide the necessary resolution to segment or trace all neurites and to annotate all synaptic connections. Automatic annotation of synaptic connections has been done successfully in near isotropic electron microscopy of vertebrate model organisms. Results on non-isotropic data in insect models, however, are not yet on par with human annotation. We designed a new 3D-U-Net architecture to optimally represent isotropic fields of view in non-isotropic data. We used regression on a signed distance transform of manually annotated synaptic clefts of the CREMI challenge dataset to train this model and observed significant improvement over the state of the art. We developed open source software for optimized parallel prediction on very large volumetric datasets and applied our model to predict synaptic clefts in a 50 tera-voxels dataset of the complete Drosophila brain. Our model generalizes well to areas far away from where training data was available. | Descripción: | Trabajo presentado en la 21st International Conference Medical Image Computing and Computer Assisted Intervention, celebrada en Granada, del 16 al 20 de septiembre de 2018 | Versión del editor: | https://doi.org/10.1007/978-3-030-00934-2_36 | URI: | http://hdl.handle.net/10261/179729 | DOI: | 10.1007/978-3-030-00934-2_36 | ISBN: | 978-3-030-00933-5 | ISSN: | 0302-9743 |
Aparece en las colecciones: | (IRII) Artículos |
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