Towards a Realistic Distribution of Cells in Synthetically
Generated 3D Cell Populations

D 2013

Towards a Realistic Distribution of Cells in Synthetically Generated 3D Cell Populations

SVOBODA, David and Vladimír ULMAN

Basic information

Original name

Towards a Realistic Distribution of Cells in Synthetically Generated 3D Cell Populations

Authors

SVOBODA, David (203 Czech Republic, guarantor, belonging to the institution) and Vladimír ULMAN (203 Czech Republic, belonging to the institution)

Edition

LNCS 8157, Part II. Berlin, Heidelberg, 17th International Conference on Image Analysis and Processing - ICIAP 2013, p. 429-438, 10 pp. 2013

Publisher

Springer-Verlag

Other information

Language

English

Type of outcome

Stať ve sborníku

Field of Study

20200 2.2 Electrical engineering, Electronic engineering, Information engineering

Country of publisher

Italy

Confidentiality degree

není předmětem státního či obchodního tajemství

Publication form

storage medium (CD, DVD, flash disk)

Impact factor

Impact factor: 0.402 in 2005

RIV identification code

RIV/00216224:14330/13:00066208

Organization unit

Faculty of Informatics

ISBN

978-3-642-41183-0

ISSN

DOI

http://dx.doi.org/10.1007/978-3-642-41184-7_44

UT WoS

000329811200044

Keywords in English

cell populations; simulation; cross-correlation

Abstract

V originále

In fluorescence microscopy, the proper evaluation of image segmentation algorithms is still an open problem. In the field of cell segmentation, such evaluation can be seen as a study of the given algorithm how well it can discover individual cells as a function of the number of them in an image (size of cell population), their mutual positions (density of cell clusters), and the level of noise. Principally, there are two approaches to the evaluation. One approach requires real input images and an expert that verifies the segmentation results. This is, however, expert dependent and, namely when handling 3D data, very tedious. The second approach uses synthetic images with ground truth data to which the segmentation result is compared objectively. In this paper, we propose a new method for generating synthetic 3D images showing naturally distributed cell populations attached to microscope slide. Cell count and clustering probability are user parameters of the method.

Links

GBP302/12/G157, research and development project

Name: Dynamika a organizace chromosomů během buněčného cyklu a při diferenciaci v normě a patologii

Investor: Czech Science Foundation

Citovat

SVOBODA, David and Vladimír ULMAN. Towards a Realistic Distribution of Cells in Synthetically Generated 3D Cell Populations. In Alfredo Petrosino. 17th International Conference on Image Analysis and Processing - ICIAP 2013. LNCS 8157, Part II. Berlin, Heidelberg: Springer-Verlag, 2013, p. 429-438. ISBN 978-3-642-41183-0. Available from: https://dx.doi.org/10.1007/978-3-642-41184-7_44.

@inproceedings{1112258,
   author = {Svoboda, David and Ulman, Vladimír},
   address = {Berlin, Heidelberg},
   booktitle = {17th International Conference on Image Analysis and Processing - ICIAP 2013},
   doi = {http://dx.doi.org/10.1007/978-3-642-41184-7_44},
   edition = {LNCS 8157, Part II},
   editor = {Alfredo Petrosino},
   keywords = {cell populations; simulation; cross-correlation},
   howpublished = {paměťový nosič},
   language = {eng},
   location = {Berlin, Heidelberg},
   isbn = {978-3-642-41183-0},
   pages = {429-438},
   publisher = {Springer-Verlag},
   title = {Towards a Realistic Distribution of Cells in Synthetically Generated 3D Cell Populations},
   year = {2013}
}

TY  - JOUR
ID  - 1112258
AU  - Svoboda, David - Ulman, Vladimír
PY  - 2013
TI  - Towards a Realistic Distribution of Cells in Synthetically Generated 3D Cell Populations
PB  - Springer-Verlag
CY  - Berlin, Heidelberg
SN  - 9783642411830
KW  - cell populations
KW  - simulation
KW  - cross-correlation
N2  - In fluorescence microscopy, the proper evaluation of image segmentation algorithms is still an open problem. In the field of cell segmentation, such evaluation can be seen as a study of the given algorithm how well it can discover individual cells as a function of the number of them in an image (size of cell population), their mutual positions (density of cell clusters), and the level of noise. Principally, there are two approaches to the evaluation. One approach requires real input images and an expert that verifies the segmentation results. This is, however, expert dependent and, namely when handling 3D data, very tedious. The second approach uses synthetic images with ground truth data to which the segmentation result is compared objectively. In this paper, we propose a new method for generating synthetic 3D images showing naturally distributed cell populations attached to microscope slide. Cell count and clustering probability are user parameters of the method.
ER  -

SVOBODA, David and Vladimír ULMAN. Towards a Realistic Distribution of Cells in Synthetically Generated 3D Cell Populations. In Alfredo Petrosino. \textit{17th International Conference on Image Analysis and Processing - ICIAP 2013}. LNCS 8157, Part II. Berlin, Heidelberg: Springer-Verlag, 2013, p.~429-438. ISBN~978-3-642-41183-0. Available from: https://dx.doi.org/10.1007/978-3-642-41184-7\_{}44.

Detailed Information on Publication Record