Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic...
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Transcript of Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic...
![Page 1: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/1.jpg)
Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart
Sandeep BhatSystems Bioimaging Lab, UCSBPresentation for ENGR 103, Nov 20, 2008
![Page 2: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/2.jpg)
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Agenda
• Motivation• Problem Setup• Algorithm stages• Results• Conclusion
![Page 3: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/3.jpg)
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Motivation
• Study of model organisms
– Embryonic development, toxicology, specific gene function.
– Zebrafish embryo is transparent
• Live imaging of embryos.
– Fluorescence microscopy (FM)
– Bright field microscopy (BFM)
• The algorithm aids BFM imaging of developing zebrafish heart.
![Page 4: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/4.jpg)
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Problem Setup
• Input: BFM image sequence
– Spanning several cardiac cycles.
• Desired output: Two image sequences
– Spanning one period (cardiac cycle)
– One showing only the heart morphology
– The other with only the transient structures (Red Blood Cells)
![Page 5: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/5.jpg)
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Algorithm Stages
• Three stages:
– Pre-processing
– Separation algorithm
– Post-processing
![Page 6: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/6.jpg)
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Separation Algorithm
• Temporal alignment
• Heart-wall:
– “Periodic”
– Mean/Median filtering
• Red Blood Cells:
– Not periodic
– Subtraction/Variance
![Page 7: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/7.jpg)
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• Flow analysis using FlowJ
Post-processing
![Page 8: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/8.jpg)
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Results• frequency components. • Testing with synthetically generated data.• Testing with synthetically generated data.
• (a) Mean+Subtraction (b) Mean+Variance
• (c) Median+Subtraction (d) Median+Variance
![Page 9: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/9.jpg)
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Results (contd.)• BFM images of zebrafish heart
![Page 10: Blind Source-Separation for Heart Wall and Erythrocyte Motion Estimation in the Beating Embryonic Heart Sandeep Bhat Systems Bioimaging Lab, UCSB Presentation.](https://reader035.fdocuments.in/reader035/viewer/2022070308/551b9273550346942b8b50ee/html5/thumbnails/10.jpg)
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Conclusion