Analýza obrazu pořízeného při fluorescenční in situ hybridizaci

KOZUBEK, Michal. Analýza obrazu pořízeného při fluorescenční in situ hybridizaci (Analysis of images obtained using fluorescence in situ hybridization). Brno: Masarykova univerzita, 1995, 64 pp.

Basic information

• Original name: Analýza obrazu pořízeného při fluorescenční in situ hybridizaci
• Name (in English): Analysis of images obtained using fluorescence in situ hybridization
• Authors: KOZUBEK, Michal.
• Edition: Brno, 64 pp. 1995.
• Publisher: Masarykova univerzita

Other information

• Type of outcome: Special-purpose publication
• Confidentiality degree: is not subject to a state or trade secret
• WWW: summary
• Organization unit: Faculty of Informatics
• Keywords in English: image analysis; fluorescence in situ hybridization; optical microscopy
• Tags: fluorescence in situ hybridization, Image analysis, optical microscopy

Abstract

One of the typical tasks of image analysis is the chromosome analysis. One of the newest cytogenetic methods which enables to distinguish fine changes in human chromosomes and interphase nuclei is fluorescence in situ hybridization (FISH). This method can be used, for example, in prenatal diagnosis or to detect malignant cells in the case of some types of leukaemia. The FISH method is considered to be prospective and can be applied not only in medicine but also in radiation protection (to detect small doses of radiation) or ecology (to determine environmental mutagens). Slides with FISH-painted chromosomes were investigated under a fluorescence microscope equipped with special excitation and emission filters. For the purpose of computer analysis, the image was captured with a cooled high sensitive color CCD camera and converted into the digital form by means of an analog frame-grabber . The aim of the work was to learn usual methods of chromosome analysis and to apply this knowledge to investigations in the field of analysis of FISH-painted slides. Although the conventional cytogenetic methods biologically differ from FISH significantly, there are still quite a lot of common features in the field of computer analysis of such images. Thus, some of the known algorithms could have been directly used or adjusted for FISH. For some purposes, however, new approaches must have been considered. New algorithms were developed for nuclei boundary detection and smoothing, gene detection and 3D-reconstruction of genes' positions in nuclei. The work has led to a specialized software system for the FISH-image analysis. The programming language was C, the environment was Microsoft Windows. The software is used at present at the the Institute of Biophysics of the Academy of Sciences of the Czech Republic in Brno and helps to diagnose different diseases, mainly hemoblastosis, and it is used for evaluation of slides with blood samples of patients in collaboration with the Centre for Hemoblastoses at Bohunice Hospital in Brno.

Abstract (in English)

One of the typical tasks of image analysis is the chromosome analysis. One of the newest cytogenetic methods which enables to distinguish fine changes in human chromosomes and interphase nuclei is fluorescence in situ hybridization (FISH). This method can be used, for example, in prenatal diagnosis or to detect malignant cells in the case of some types of leukaemia. The FISH method is considered to be prospective and can be applied not only in medicine but also in radiation protection (to detect small doses of radiation) or ecology (to determine environmental mutagens). Slides with FISH-painted chromosomes were investigated under a fluorescence microscope equipped with special excitation and emission filters. For the purpose of computer analysis, the image was captured with a cooled high sensitive color CCD camera and converted into the digital form by means of an analog frame-grabber . The aim of the work was to learn usual methods of chromosome analysis and to apply this knowledge to investigations in the field of analysis of FISH-painted slides. Although the conventional cytogenetic methods biologically differ from FISH significantly, there are still quite a lot of common features in the field of computer analysis of such images. Thus, some of the known algorithms could have been directly used or adjusted for FISH. For some purposes, however, new approaches must have been considered. New algorithms were developed for nuclei boundary detection and smoothing, gene detection and 3D-reconstruction of genes' positions in nuclei. The work has led to a specialized software system for the FISH-image analysis. The programming language was C, the environment was Microsoft Windows. The software is used at present at the the Institute of Biophysics of the Academy of Sciences of the Czech Republic in Brno and helps to diagnose different diseases, mainly hemoblastosis, and it is used for evaluation of slides with blood samples of patients in collaboration with the Centre for Hemoblastoses at Bohunice Hospital in Brno.