Segmentation of clustered nuclei with shape markers and marking function
We present a method to separate clustered nuclei from fluorescence microscopy cellular images, using shape markers and marking function in a watershed-like algorithm. Shape markers are extracted using an adaptive H-minima transform. A marking function based on the outer distance transform is introdu...
| Main Authors: | , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
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Institute of Electrical and Electronics Engineers
2010
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| Online Access: | http://hdl.handle.net/1721.1/52579 |
| _version_ | 1826204924835266560 |
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| author | Rajapakse, Jagath Cheng, Jierong |
| author2 | Massachusetts Institute of Technology. Department of Biological Engineering |
| author_facet | Massachusetts Institute of Technology. Department of Biological Engineering Rajapakse, Jagath Cheng, Jierong |
| author_sort | Rajapakse, Jagath |
| collection | MIT |
| description | We present a method to separate clustered nuclei from fluorescence microscopy cellular images, using shape markers and marking function in a watershed-like algorithm. Shape markers are extracted using an adaptive H-minima transform. A marking function based on the outer distance transform is introduced to accurately separate clustered nuclei. With synthetic images, we quantitatively demonstrate the performance of our method and provide comparisons with existing approaches. On mouse neuronal and Drosophila cellular images, we achieved 6%-7% improvement of segmentation accuracies over earlier methods. |
| first_indexed | 2024-09-23T13:03:32Z |
| format | Article |
| id | mit-1721.1/52579 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T13:03:32Z |
| publishDate | 2010 |
| publisher | Institute of Electrical and Electronics Engineers |
| record_format | dspace |
| spelling | mit-1721.1/525792022-10-01T12:49:46Z Segmentation of clustered nuclei with shape markers and marking function Rajapakse, Jagath Cheng, Jierong Massachusetts Institute of Technology. Department of Biological Engineering Cheng, Jierong Rajapakse, Jagath Cheng, Jierong We present a method to separate clustered nuclei from fluorescence microscopy cellular images, using shape markers and marking function in a watershed-like algorithm. Shape markers are extracted using an adaptive H-minima transform. A marking function based on the outer distance transform is introduced to accurately separate clustered nuclei. With synthetic images, we quantitatively demonstrate the performance of our method and provide comparisons with existing approaches. On mouse neuronal and Drosophila cellular images, we achieved 6%-7% improvement of segmentation accuracies over earlier methods. Computation and Systems Biology Programme of Singapore–Massachusetts Institute of Technology Alliance 2010-03-15T16:35:49Z 2010-03-15T16:35:49Z 2009-11 2008-07 Article http://purl.org/eprint/type/JournalArticle 0018-9294 http://hdl.handle.net/1721.1/52579 Jierong Cheng, and J.C. Rajapakse. “Segmentation of Clustered Nuclei With Shape Markers and Marking Function.” Biomedical Engineering, IEEE Transactions on 56.3 (2009): 741-748. © 2009 IEEE en_US http://dx.doi.org/10.1109/TBME.2008.2008635 IEEE Transactions on Biomedical Engineering Article is made available in accordance with the publisher’s policy and may be subject to US copyright law. Please refer to the publisher’s site for terms of use. application/pdf Institute of Electrical and Electronics Engineers IEEE |
| spellingShingle | Rajapakse, Jagath Cheng, Jierong Segmentation of clustered nuclei with shape markers and marking function |
| title | Segmentation of clustered nuclei with shape markers and marking function |
| title_full | Segmentation of clustered nuclei with shape markers and marking function |
| title_fullStr | Segmentation of clustered nuclei with shape markers and marking function |
| title_full_unstemmed | Segmentation of clustered nuclei with shape markers and marking function |
| title_short | Segmentation of clustered nuclei with shape markers and marking function |
| title_sort | segmentation of clustered nuclei with shape markers and marking function |
| url | http://hdl.handle.net/1721.1/52579 |
| work_keys_str_mv | AT rajapaksejagath segmentationofclusterednucleiwithshapemarkersandmarkingfunction AT chengjierong segmentationofclusterednucleiwithshapemarkersandmarkingfunction |