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DeepCeNS: An end-to-end Pipeline for Cell and Nucleus Segmentation in Microscopic Images
German Research Center for Artificial Intelligence (DFKI) GmbH, Kaiserslautern, Germany.
German Research Center for Artificial Intelligence (DFKI) GmbH, Kaiserslautern, Germany.
Sartorius Corporate Research, Sweden.
Sartorius, BioAnalytics, Royston, United Kingdom.
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2021 (English)In: Proceedings of the International Joint Conference on Neural Networks, IEEE, 2021Conference paper, Published paper (Refereed)
Abstract [en]

With the evolution of deep learning in the past decade, more biomedical related problems that seemed strenuous, are now feasible. The introduction of U-net and Mask R-CNN architectures has paved a way for many object detection and segmentation tasks in numerous applications ranging from security to biomedical applications. In the cell biology domain, light microscopy imaging provides a cheap and accessible source of raw data to study biological phenomena. By leveraging such data and deep learning techniques, human diseases can be easily diagnosed and the process of treatment development can be greatly expedited. In microscopic imaging, accurate segmentation of individual cells is a crucial step to allow better insight into cellular heterogeneity. To address the aforementioned challenges, DeepCeNS is proposed in this paper to detect and segment cells and nucleus in microscopic images. We have used EVICAN2 dataset which contains microscopic images from a variety of microscopes having numerous cell cultures, to evaluate the proposed pipeline. DeepCeNS outperforms EVICAN-MRCNN by a significant margin on the EVICAN2 dataset.

Place, publisher, year, edition, pages
IEEE, 2021.
Series
Proceedings of International Joint Conference on Neural Networks, ISSN 2161-4393, E-ISSN 2161-4407 ; 2021 July
Keywords [en]
biomedical, cell segmentation, deep learning, healthcare, nucleus segmentation
National Category
Computer graphics and computer vision Medical Imaging
Identifiers
URN: urn:nbn:se:umu:diva-188631DOI: 10.1109/IJCNN52387.2021.9533624ISI: 000722581702085Scopus ID: 2-s2.0-85116427196ISBN: 9780738133669 (electronic)ISBN: 9781665439008 (electronic)ISBN: 9781665445979 (print)OAI: oai:DiVA.org:umu-188631DiVA, id: diva2:1603906
Conference
2021 International Joint Conference on Neural Networks, IJCNN 2021, Virtual, Shenzhen, China, 18-22 July, 2021
Available from: 2021-10-18 Created: 2021-10-18 Last updated: 2025-02-09Bibliographically approved

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Trygg, JohanSjögren, Rickard

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CiteExportLink to record
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