Automated analysis of siRNA screens of cells infected by hepatitis C and dengue viruses based on immunofluorescence microscopy images

Petr Matula; Anil Kumar; Ilka Wörz; Nathalie Harder; Holger Erfle; Ralf Bartenschlager; Roland Eils; Karl Rohr

doi:10.1117/12.770778

12 March 2008 Automated analysis of siRNA screens of cells infected by hepatitis C and dengue viruses based on immunofluorescence microscopy images

Petr Matula, Anil Kumar, Ilka Wörz, Nathalie Harder, Holger Erfle, Ralf Bartenschlager, Roland Eils, Karl Rohr

Author Affiliations +

Proceedings Volume 6916, Medical Imaging 2008: Physiology, Function, and Structure from Medical Images; 69161G (2008) https://doi.org/10.1117/12.770778
Event: Medical Imaging, 2008, San Diego, California, United States

Abstract

We present an image analysis approach as part of a high-throughput microscopy siRNA-based screening system using cell arrays for the identification of cellular genes involved in hepatitis C and dengue virus replication. Our approach comprises: cell nucleus segmentation, quantification of virus replication level in the neighborhood of segmented cell nuclei, localization of regions with transfected cells, cell classification by infection status, and quality assessment of an experiment and single images. In particular, we propose a novel approach for the localization of regions of transfected cells within cell array images, which combines model-based circle fitting and grid fitting. By this scheme we integrate information from single cell array images and knowledge from the complete cell arrays. The approach is fully automatic and has been successfully applied to a large number of cell array images from screening experiments. The experimental results show a good agreement with the expected behaviour of positive as well as negative controls and encourage the application to screens from further high-throughput experiments.

Citation Download Citation

Petr Matula, Anil Kumar, Ilka Wörz, Nathalie Harder, Holger Erfle, Ralf Bartenschlager, Roland Eils, and Karl Rohr "Automated analysis of siRNA screens of cells infected by hepatitis C and dengue viruses based on immunofluorescence microscopy images", Proc. SPIE 6916, Medical Imaging 2008: Physiology, Function, and Structure from Medical Images, 69161G (12 March 2008); https://doi.org/10.1117/12.770778

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