Literature DB >> 22003674

Carving: scalable interactive segmentation of neural volume electron microscopy images.

C N Straehle1, U Köthe, G Knott, F A Hamprecht.   

Abstract

Interactive segmentation algorithms should respond within seconds and require minimal user guidance. This is a challenge on 3D neural electron microscopy images. We propose a supervoxel-based energy function with a novel background prior that achieves these goals. This is verified by extensive experiments with a robot mimicking human interactions. A graphical user interface offering access to an open source implementation of these algorithms is made available.

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Mesh:

Year:  2011        PMID: 22003674     DOI: 10.1007/978-3-642-23623-5_82

Source DB:  PubMed          Journal:  Med Image Comput Comput Assist Interv


  14 in total

Review 1.  Cellular-resolution connectomics: challenges of dense neural circuit reconstruction.

Authors:  Moritz Helmstaedter
Journal:  Nat Methods       Date:  2013-06       Impact factor: 28.547

2.  Semiautomated correlative 3D electron microscopy of in vivo-imaged axons and dendrites.

Authors:  Bohumil Maco; Marco Cantoni; Anthony Holtmaat; Anna Kreshuk; Fred A Hamprecht; Graham W Knott
Journal:  Nat Protoc       Date:  2014-05-15       Impact factor: 13.491

3.  Along-axon diameter variation and axonal orientation dispersion revealed with 3D electron microscopy: implications for quantifying brain white matter microstructure with histology and diffusion MRI.

Authors:  Hong-Hsi Lee; Katarina Yaros; Jelle Veraart; Jasmine L Pathan; Feng-Xia Liang; Sungheon G Kim; Dmitry S Novikov; Els Fieremans
Journal:  Brain Struct Funct       Date:  2019-02-21       Impact factor: 3.270

4.  Large-scale automatic reconstruction of neuronal processes from electron microscopy images.

Authors:  Verena Kaynig; Amelio Vazquez-Reina; Seymour Knowles-Barley; Mike Roberts; Thouis R Jones; Narayanan Kasthuri; Eric Miller; Jeff Lichtman; Hanspeter Pfister
Journal:  Med Image Anal       Date:  2015-03-02       Impact factor: 8.545

Review 5.  Computational methods and challenges for large-scale circuit mapping.

Authors:  Moritz Helmstaedter; Partha P Mitra
Journal:  Curr Opin Neurobiol       Date:  2012-01-03       Impact factor: 6.627

6.  Riches of phenotype computationally extracted from microbial colonies.

Authors:  Tzu-Yu Liu; Anne E Dodson; Jonathan Terhorst; Yun S Song; Jasper Rine
Journal:  Proc Natl Acad Sci U S A       Date:  2016-05-02       Impact factor: 11.205

7.  Rapid and Semi-automated Extraction of Neuronal Cell Bodies and Nuclei from Electron Microscopy Image Stacks.

Authors:  Paul S Holcomb; Michael Morehead; Gianfranco Doretto; Peter Chen; Stuart Berg; Stephen Plaza; George Spirou
Journal:  Methods Mol Biol       Date:  2016

8.  Correlative in vivo 2 photon and focused ion beam scanning electron microscopy of cortical neurons.

Authors:  Bohumil Maco; Anthony Holtmaat; Marco Cantoni; Anna Kreshuk; Christoph N Straehle; Fred A Hamprecht; Graham W Knott
Journal:  PLoS One       Date:  2013-02-28       Impact factor: 3.240

9.  NeuroMorph: a toolset for the morphometric analysis and visualization of 3D models derived from electron microscopy image stacks.

Authors:  Anne Jorstad; Biagio Nigro; Corrado Cali; Marta Wawrzyniak; Pascal Fua; Graham Knott
Journal:  Neuroinformatics       Date:  2015-01

10.  Ultrastructural analysis of adult mouse neocortex comparing aldehyde perfusion with cryo fixation.

Authors:  Natalya Korogod; Carl C H Petersen; Graham W Knott
Journal:  Elife       Date:  2015-08-11       Impact factor: 8.140

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