Author(s)
Irene de Cesare
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Criseida Zamora-Chimal
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Lorena Postiglione
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Antonella La Regina
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Barbara Shannon
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Claire S Grierson
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Mario di Barnardo
Published 3 Projects
Microscopy Bioinformatics Synthetic Biology Systems Biology Deep Learning
Thomas E. Gorochowski
Published 9 Projects
Microscopy Bioinformatics Rna Seq Synthetic Biology Systems Biology
Content
Video Abstract (AI generated) (01:13) Paper Preprint Movie S1 Movie S2 Movie S3 Movie S4 (www,github)Advances in microscopy, microfluidics and optogenetics enable single cell monitoring and environmental regulation and offer the means to control cellular phenotypes. The development of such systems is challenging and often results in bespoke setups that hinder reproducibility. To address this, we introduce Cheetah - a flexible computational toolkit that simplifies the integration of real-time microscopy analysis with algorithms for cellular control. Central to the platform is an image segmentation system based on the versatile U-Net convolutional neural network. This is supplemented with functionality to robustly count, characterise and control cells over time. We demonstrate Cheetah's core capabilities by analysing long-term bacterial and mammalian cell growth and by dynamically controlling protein expression in mammalian cells. In all cases, Cheetah's segmentation accuracy exceeds that of a commonly used thresholding-based method, allowing for more accurate control signals to be generated. Availability of this easy-to-use platform will make control engineering techniques more accessible and offer new ways to probe and manipulate living cells.
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Thomas E. Gorochowski. (2021, Nov 3).Cheetah: a computational toolkit for cybergenetic control[Video]. Scitok. https://scitok.com/project/p/78e2d101
Pedone Elisa. "Cheetah: a computational toolkit for cybergenetic control" Scitok, uploaded by E. Gorochowski Thomas, 3 Nov, 2021, https://scitok.com/project/p78e2d101
Thomas E. Gorochowski. "Cheetah: a computational toolkit for cybergenetic control" Scitok. (Nov 3, 2021). https://scitok.com/project/p/78e2d101
Thomas E. Gorochowski (Nov 3, 2021). Cheetah: a computational toolkit for cybergenetic control Scitok. https://scitok.com/project/p/78e2d101
Thomas E. Gorochowski. Cheetah: a computational toolkit for cybergenetic control[video]. 2021 Nov 3. https://scitok.com/project/p/78e2d101
@online{al2006link, title={ Cheetah: a computational toolkit for cybergenetic control }, author={ E. Gorochowski, Thomas }, organization={Scitok}, month={ Nov }, day={ 3 }, year={ 2021 }, url = {https://scitok.com/project/p/78e2d101}, }