NDLI: Towards a versatile automated cell-detection system for science and diagnostics

Content Provider	IEEE Xplore Digital Library
Author	Heindl, A. Dekan, S. Ellinger, I. Seewald, A.K.
Copyright Year	2010
Description	Author affiliation: Medical University of Vienna, Department of Clinical Pathology, Austria (Dekan, S.) \|\| Medical University of Vienna, Department of Pathophysiology and Allergy Research, Austria (Heindl, A.; Ellinger, I.) \|\| Seewald Solutions, Vienna, Austria (Seewald, A.K.)
Abstract	Analyzing in-situ tissue structures with complex shapes and textures such as multinuclear cells or cells without nuclei is still a challenge for currently available imageprocessing software. This work aims to provide a versatile system to solve such tasks provided that the structures of interests were detected by immunofluorescence microscopy. Images were automatically acquired using slide-based microscopy. Human domain-experts manually marked up tissue samples to evaluate the performance of the computer generated masks. From precision and recall a balanced F-score was computed to measure the correlation between experts and algorithm output. Exhaustive parameter optimization was conducted to ensure that the optimal input parameters were applied during evaluation of the developed algorithm. This procedure significantly increased the performance compared to manually chosen input parameters. We present an approach that can handle huge tissue areas and does not rely on nuclei detection. Once a markup has been created, the algorithm can be parameter-optimized on ground-truth data for the chosen tissue sample. Thereafter, the resulting settings could be applied automatically to the respective stitched image. Concluding, we provide new insights in physiological and pathopysiological cellular mechanisms by automating the in-situ analysis of proteins in intact tissues.
Starting Page	3045
Ending Page	3048
File Size	1398508
Page Count	4
File Format	PDF
ISBN	9781424441235
ISSN	1557170X
DOI	10.1109/IEMBS.2010.5626140
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2010-08-31
Publisher Place	Argentina
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Pixel Proteins Algorithm design and analysis Histograms Microscopy Software tools
Content Type	Text
Resource Type	Article
Subject	Signal Processing Biomedical Engineering Health Informatics Computer Vision and Pattern Recognition

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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