Tissue image reconstruction: Localization of nuclei markers and segmentation based on deformable models

SVOBODA, David and Pavel MATULA. Tissue image reconstruction: Localization of nuclei markers and segmentation based on deformable models. In Biophysics of the Genome. Brno: Masaryk University. p. 67-70. ISBN 80-210-3226-X. 2003.

Basic information

• Original name: Tissue image reconstruction: Localization of nuclei markers and segmentation based on deformable models
• Authors: SVOBODA, David (203 Czech Republic) and Pavel MATULA (203 Czech Republic, guarantor).
• Edition: Brno, Biophysics of the Genome, p. 67-70, 4 pp. 2003.
• Publisher: Masaryk University

Other information

• Original language: English
• Type of outcome: Proceedings paper
• Field of Study: 10201 Computer sciences, information science, bioinformatics
• Country of publisher: Czech Republic
• Confidentiality degree: is not subject to a state or trade secret
• RIV identification code: RIV/00216224:14330/03:00008575
• Organization unit: Faculty of Informatics
• ISBN: 80-210-3226-X
• Keywords in English: image analysis
• Tags: Image analysis
• Tags: International impact

Abstract

Tissue segmentation has not been safisfactory solved yet. Several recent papers [3,4] brought some new pieces of knowledge into this area. However there is a lot of open questions. Improving the degree of automation of tissue segmentation is a great challenge. A new 3-step semiautomatic method was developed for tissue segmentation. The method is suitable for specifically-shaped cells. The first step includes searching for cells markers, i. e. the approximate center of each cell is localized. The localization is based on careful analysis of cell boundaries and on the assumption that the cells are sphere-like objects. The main contribution of the method is the possibility to find the cells markers without choosing the particular cells by hand. In the next step the surface of each cell is reconstructed. The procedure is based on the method for spherical object reconstruction presented in [7]. That method uses star-shaped simplex mesh to reconstruct the cell surface. The method was partially changed and was adapted to be more suitable for our purposes. First of all the problem of getting stuck in local minima had to be solved. Therefore another type of simplex mesh called dual simplex mesh was used. In addition the deformation process was sped up. The final step concerns evaluation of the results: both of the first two steps are nearly automatic, therefore the quality of their results should be measured.

Links

• IAB5004102, research and development project: Name: Jaderná topologie některých protoonkogenů u lidských neutrofilních granulocytů a leukemických buněk

Investor: Academy of Sciences of the Czech Republic, Nuclear topology of some protooncogenes in human neutrophilic granulocytes and leukemic cells

• IBS5004010, research and development project: Name: Vývoj nových diagnostických technik pro onkologii

Investor: Academy of Sciences of the Czech Republic, Development of new diagnostic teniques for oncology

• MSM 143300002, plan (intention): Name: Využití počítačové analýzy obrazu v optické mikroskopii

Investor: Ministry of Education, Youth and Sports of the CR, Application of computer image analysis in optical microscopy