Using multimodal information for the segmentation of fluorescent micrographs with application to Virology and microbiology

Held C, Wenzel J, Webel R, Marschall M, Palmisano R, Wittenberg T (2011)

Publication Status: Published

Publication Type: Conference contribution, Conference Contribution

Publication year: 2011

Journal

Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society IEEE Engineering in Medicine and Biology Society

Original Authors: Held C, Wenzel J, Webel R, Marschall M, Lang R, Palmisano R, Wittenberg T

Pages Range: 6487-6490

Conference Proceedings Title: Proc*s 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society,EMBC,

Event location: Boston, MA US

URI: http://www.ncbi.nlm.nih.gov/pubmed/22255824?dopt=Abstract

DOI: 10.1109/IEMBS.2011.6091601

Abstract

In order to improve reproducibility and objectivity of fluorescence microscopy based experiments and to enable the evaluation of large datasets, flexible segmentation methods are required which are able to adapt to different stainings and cell types. This adaption is usually achieved by the manual adjustment of the segmentation methods parameters, which is time consuming and challenging for biologists with no knowledge on image processing. To avoid this, parameters of the presented methods automatically adapt to user generated ground truth to determine the best method and the optimal parameter setup. These settings can then be used for segmentation of the remaining images. As robust segmentation methods form the core of such a system, the currently used watershed transform based segmentation routine is replaced by a fast marching level set based segmentation routine which incorporates knowledge on the cell nuclei. Our evaluations reveal that incorporation of multimodal information improves segmentation quality for the presented fluorescent datasets. © 2011 IEEE.

Authors with CRIS profile

Jens Wenzel Professur für Angeborene Immunität und Pathogenerkennung Rike Webel Medizinische Fakultät Manfred Marschall Lehrstuhl für Klinische und Molekulare Virologie Ralf Palmisano FAU Optical Imaging Competence Center (FAU OICE) Thomas Wittenberg Technische Fakultät

Additional Organisation(s)

Optical Imaging Center Erlangen (OICE)

Related research project(s)

None - None Automated multi-dimensional, high-content image-analysis for fluorescence-microscopy (A04) (SFB 796) SFB 796: Steuerungsmechanismen mikrobieller Effektoren in Wirtszellen Jan. 1, 2009 - Dec. 31, 2017

Involved external institutions

Fraunhofer-Institut für Integrierte Schaltungen (IIS) DE Germany (DE)

How to cite

APA:

Held, C., Wenzel, J., Webel, R., Marschall, M., Palmisano, R., & Wittenberg, T. (2011). Using multimodal information for the segmentation of fluorescent micrographs with application to Virology and microbiology. In Proc*s 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society,EMBC, (pp. 6487-6490). Boston, MA, US.

MLA:

Held, Christian, et al. "Using multimodal information for the segmentation of fluorescent micrographs with application to Virology and microbiology." Proceedings of the 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society,EMBC,, Boston, MA 2011. 6487-6490.

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