EPFL
 Biomedical Imaging GroupSTI
EPFL
  Publications
English only   BIG > Publications > Neurite Tracing


 CONTENTS
 Home Page
 News & Events
 People
 Publications
 Tutorials and Reviews
 Research
 Demos
 Download Algorithms

 DOWNLOAD
 PDF not available
 PS not available
 All BibTeX References

A Novel Tool for Neurite Tracing and Analysis in Fluorescence Microscopy

E. Meijering, M. Jacob, J.-C.F. Sarria, P. Steiner, H. Hirling, M. Unser

Proceedings of the EMBO Workshop on Advanced Light Microscopy, Third International Meeting of the European Light Microscopy Initiative (ELMI'03), Barcelona, Kingdom of Spain, June 11-13, 2003, pp. 6.



For the investigation of the proteins and mechanisms involved in neurite formation, accurate and user-friendly morphometric image analysis tools are indispensable. In the past, a number of automated tools have been developed for the tracing and quantification of neurite outgrowth in three-dimensional confocal microscopy image stacks. In two-dimensional fluorescence microscopy images of cell cultures, however, fully automated neurite tracing is seriously impeded by ambiguities caused by gross intensity discontinuities and the crossing of neurites. It is not surprising, therefore, that manual delineation using rudimentary drawing tools still is the most frequently used approach to neurite tracing, as our recent study of over one hundred papers related to neurite outgrowth published in the last two years has revealed. To facilitate neurite analysis in fluorescence microscopy, we have developed a novel tracing technique that is able to cope with the mentioned problems. Contrary to existing techniques, which are based mostly on recursive vectorial tracking, our technique is based on a powerful optimization algorithm capable of yielding very plausible tracings even under extreme noise conditions and intensity discontinuities. In addition, it does not depend on any hard thresholds for its operation. The algorithm contains only a few parameters which can be kept fixed for a wide range of images. The software tool built around the tracing algorithm is computer-platform independent and provides a number of functionalities facilitating quantitative and statistical analysis. In this presentation we highlight the principles underlying our neurite tracing tool and present the findings of a currently ongoing validation study showing the precise improvement in accuracy and reproducibility as well as the reduction in user interaction and variability compared to fully manual tracing. The presentation is concluded with a demonstration of the functionalities of the tool.


@INPROCEEDINGS(http://bigwww.epfl.ch/publications/meijering0302.html,
AUTHOR="Meijering, E. and Jacob, M. and Sarria, J.-C.F. and Steiner,
        P. and Hirling, H. and Unser, M.",
TITLE="A Novel Tool for Neurite Tracing and Analysis in Fluorescence
        Microscopy",
BOOKTITLE="Proceedings of the {EMBO} Workshop on Advanced Light
        Microscopy, Third International Meeting of the European Light
        Microscopy Initiative ({ELMI'03})",
YEAR="2003",
editor="",
volume="",
series="",
pages="6",
address="Barcelona, Kingdom of Spain",
month="June 11-13,",
organization="",
publisher="",
note="")

© 2003 EMBO. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from EMBO.
This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder.