A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation
This work presents a unified framework for whole cell segmentation of surface stained living cells from 3-D data sets of fluorescent images. Every step of the process is described, image acquisition, prefiltering, ridge enhancement, cell segmentation, and a segmentation evaluation. The segmentation...
| Main Authors: | , , , , , , |
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| Format: | Journal Article |
| Language: | English |
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2009
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| Online Access: | https://hdl.handle.net/10356/91402 http://hdl.handle.net/10220/6055 http://sfxna09.hosted.exlibrisgroup.com:3410/ntu/sfxlcl3?sid=metalib:EBSCO_APH&id=doi:&genre=&isbn=&issn=02780062&date=2009&volume=28&issue=5&spage=720&epage=738&aulast=Hodneland&aufirst=%20Erlend&auinit=&title=IEEE%20Transactions%20on%20Medical%20Imaging&atitle=A%20Unified%20Framework%20for%20Automated%203%2DD%20Segmentation%20of%20Surface%2DStained%20Living%20Cells%20and%20a%20Comprehensive%20Segmentation%20Evaluation%2E&sici |
| _version_ | 1811695328049496064 |
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| author | Erlend, Hodneland Nickolay V., Bukoreshtliev Tilo W., Eichler Tai, Xue Cheng Steffen, Gurke Arvid, Lundervold Hans-Hermann, Gerdes |
| author2 | School of Physical and Mathematical Sciences |
| author_facet | School of Physical and Mathematical Sciences Erlend, Hodneland Nickolay V., Bukoreshtliev Tilo W., Eichler Tai, Xue Cheng Steffen, Gurke Arvid, Lundervold Hans-Hermann, Gerdes |
| author_sort | Erlend, Hodneland |
| collection | NTU |
| description | This work presents a unified framework for whole cell segmentation of surface stained living cells from 3-D data sets of fluorescent images. Every step of the process is described, image acquisition, prefiltering, ridge enhancement, cell segmentation, and a segmentation evaluation. The segmentation results from two different automated approaches for segmentation are compared to manual segmentation of the same data using a rigorous evaluation scheme. This revealed that combination of the respective cell types with the most suitable microscopy method resulted in high success rates up to 97%. The described approach permits to automatically perform a statistical analysis of various parameters from living cells. |
| first_indexed | 2024-10-01T07:21:43Z |
| format | Journal Article |
| id | ntu-10356/91402 |
| institution | Nanyang Technological University |
| language | English |
| last_indexed | 2024-10-01T07:21:43Z |
| publishDate | 2009 |
| record_format | dspace |
| spelling | ntu-10356/914022023-02-28T19:37:18Z A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation Erlend, Hodneland Nickolay V., Bukoreshtliev Tilo W., Eichler Tai, Xue Cheng Steffen, Gurke Arvid, Lundervold Hans-Hermann, Gerdes School of Physical and Mathematical Sciences DRNTU::Science::Mathematics::Applied mathematics DRNTU::Engineering::Computer science and engineering::Computing methodologies::Image processing and computer vision This work presents a unified framework for whole cell segmentation of surface stained living cells from 3-D data sets of fluorescent images. Every step of the process is described, image acquisition, prefiltering, ridge enhancement, cell segmentation, and a segmentation evaluation. The segmentation results from two different automated approaches for segmentation are compared to manual segmentation of the same data using a rigorous evaluation scheme. This revealed that combination of the respective cell types with the most suitable microscopy method resulted in high success rates up to 97%. The described approach permits to automatically perform a statistical analysis of various parameters from living cells. Published version 2009-08-12T03:09:32Z 2019-12-06T18:05:02Z 2009-08-12T03:09:32Z 2019-12-06T18:05:02Z 2009 2009 Journal Article Hodneland, E., Bukoreshtliev, N. V., Eichler, T. W., Tai, X. C., Gurke, S., Lundervold, A., et al.(2009). A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation evaluation. IEEE Transactions on Medical Imaging, 28(5), 720-738. 0278-0062 https://hdl.handle.net/10356/91402 http://hdl.handle.net/10220/6055 http://sfxna09.hosted.exlibrisgroup.com:3410/ntu/sfxlcl3?sid=metalib:EBSCO_APH&id=doi:&genre=&isbn=&issn=02780062&date=2009&volume=28&issue=5&spage=720&epage=738&aulast=Hodneland&aufirst=%20Erlend&auinit=&title=IEEE%20Transactions%20on%20Medical%20Imaging&atitle=A%20Unified%20Framework%20for%20Automated%203%2DD%20Segmentation%20of%20Surface%2DStained%20Living%20Cells%20and%20a%20Comprehensive%20Segmentation%20Evaluation%2E&sici 10.1109/TMI.2008.2011522 en IEEE Transactions on Medical Imaging. IEEE Transactions on Medical Imaging © copyright 2009 IEEE. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE. This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder. http://www.ieee.org/portal/site. 19 p. application/pdf |
| spellingShingle | DRNTU::Science::Mathematics::Applied mathematics DRNTU::Engineering::Computer science and engineering::Computing methodologies::Image processing and computer vision Erlend, Hodneland Nickolay V., Bukoreshtliev Tilo W., Eichler Tai, Xue Cheng Steffen, Gurke Arvid, Lundervold Hans-Hermann, Gerdes A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation |
| title | A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation |
| title_full | A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation |
| title_fullStr | A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation |
| title_full_unstemmed | A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation |
| title_short | A unified framework for automated 3D whole cell segmentation of living cells and a comprehensive segmentation |
| title_sort | unified framework for automated 3d whole cell segmentation of living cells and a comprehensive segmentation |
| topic | DRNTU::Science::Mathematics::Applied mathematics DRNTU::Engineering::Computer science and engineering::Computing methodologies::Image processing and computer vision |
| url | https://hdl.handle.net/10356/91402 http://hdl.handle.net/10220/6055 http://sfxna09.hosted.exlibrisgroup.com:3410/ntu/sfxlcl3?sid=metalib:EBSCO_APH&id=doi:&genre=&isbn=&issn=02780062&date=2009&volume=28&issue=5&spage=720&epage=738&aulast=Hodneland&aufirst=%20Erlend&auinit=&title=IEEE%20Transactions%20on%20Medical%20Imaging&atitle=A%20Unified%20Framework%20for%20Automated%203%2DD%20Segmentation%20of%20Surface%2DStained%20Living%20Cells%20and%20a%20Comprehensive%20Segmentation%20Evaluation%2E&sici |
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