Spatial quantitative analysis of fluorescently labeled nuclear structures: Problems, methods, pitfalls View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2008-05

AUTHORS

O. Ronneberger, D. Baddeley, F. Scheipl, P. J. Verveer, H. Burkhardt, C. Cremer, L. Fahrmeir, T. Cremer, B. Joffe

ABSTRACT

The vast majority of microscopic data in biology of the cell nucleus is currently collected using fluorescence microscopy, and most of these data are subsequently subjected to quantitative analysis. The analysis process unites a number of steps, from image acquisition to statistics, and at each of these steps decisions must be made that may crucially affect the conclusions of the whole study. This often presents a really serious problem because the researcher is typically a biologist, while the decisions to be taken require expertise in the fields of physics, computer image analysis, and statistics. The researcher has to choose between multiple options for data collection, numerous programs for preprocessing and processing of images, and a number of statistical approaches. Written for biologists, this article discusses some of the typical problems and errors that should be avoided. The article was prepared by a team uniting expertise in biology, microscopy, image analysis, and statistics. It considers the options a researcher has at the stages of data acquisition (choice of the microscope and acquisition settings), preprocessing (filtering, intensity normalization, deconvolution), image processing (radial distribution, clustering, co-localization, shape and orientation of objects), and statistical analysis. More... »

PAGES

523

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s10577-008-1236-4

DOI

http://dx.doi.org/10.1007/s10577-008-1236-4

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1002248329

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/18461488


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585 schema:name Department of Anthropology and Human Genetics, Ludwig-Maximilian University, Grosshaderner Str 3, 82152, Munich, Germany
586 Department of Statistics, Ludwig-Maximilian University, Munich, Germany
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588 https://www.grid.ac/institutes/grid.5963.9 schema:alternateName University of Freiburg
589 schema:name Department of Pattern Recognition and Image Processing, University of Freiburg, 79110, Freiburg, Germany
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591 https://www.grid.ac/institutes/grid.7700.0 schema:alternateName Heidelberg University
592 schema:name Applied Optics and Image Processing Group, Kirchhoff Institute of Physics, University of Heidelberg, 69120, Heidelberg, Germany
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