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Journal of Biomedical Optics • Open Access

SpineLab: tool for three-dimensional reconstruction of neuronal cell morphology
Author(s): Daniel Jungblut; Gabriel Wittum; Andreas Vlachos; Gerlind Schuldt; Nadine Zahn; Thomas Deller

Paper Abstract

SpineLab is a software tool developed for reconstructing neuronal feature skeletons from three-dimensional single- or multi-photon image stacks. These images often suffer from limited resolution and a low signal-to-noise ratio, making the extraction of morphometric information difficult. To overcome this limitation, we have developed a software tool that offers the possibility to create feature skeletons in various modes-automatically as well as with manual interaction. We have named this novel tool SpineLab. In a first step, an investigator adjusts a set of parameters for automatic analysis in an interactive manner, i.e., with online visual feedback, followed by a second step, in which the neuronal feature skeleton can be modified by hand. We validate the ability of SpineLab to reconstruct the entire dendritic tree of identified GFP-expressing neurons and evaluate the accuracy of dendritic spine detection. We report that SpineLab is capable of significantly facilitating the reconstruction of dendrites and spines. Moreover, the automatic approach appears sufficient to detect spine density changes in time-lapse imaging experiments. Taken together, we conclude that SpineLab is an ideal software tool for partially automatic reconstruction of neural cell morphology.

Paper Details

Date Published: 6 July 2012
PDF: 8 pages
J. Biomed. Opt. 17(7) 076007 doi: 10.1117/1.JBO.17.7.076007
Published in: Journal of Biomedical Optics Volume 17, Issue 7
Show Author Affiliations
Daniel Jungblut, Johann Wolfgang Goethe-Univ. Frankfurt am Main (Germany)
Gabriel Wittum, Johann Wolfgang Goethe-Univ. Frankfurt am Main (Germany)
Andreas Vlachos, Johann Wolfgang Goethe-Univ. Frankfurt am Main (Germany)
Gerlind Schuldt, Johann Wolfgang Goethe-Univ. Frankfurt am Main (Germany)
Nadine Zahn, Johann Wolfgang Goethe-Univ. Frankfurt am Main (Germany)
Thomas Deller, Johann Wolfgang Goethe-Univ. Frankfurt am Main (Germany)

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