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An Observation Data Driven Simulation and Analysis Framework for Early Stage <i>C. elegans</i> Embryogenesis
Environmental Science Division, Oak Ridge National Laboratory, Oak Ridge, USA
Department of Electric Engineering and Computer Science, University of Tennessee, Knoxville, USA
Department of Mechanical, Aerospace and Biomedical Engineering, University of Tennessee, Knoxville, USA
Developmental Biology Program, Memorial Sloan Kettering Cancer Center, NYC, USA
Developmental Biology Program, Memorial Sloan Kettering Cancer Center, NYC, USA
- 1 Environmental Science Division, Oak Ridge National Laboratory, Oak Ridge, USA
- 2 Department of Electric Engineering and Computer Science, University of Tennessee, Knoxville, USA
- 3 Department of Mechanical, Aerospace and Biomedical Engineering, University of Tennessee, Knoxville, USA
- 4 Developmental Biology Program, Memorial Sloan Kettering Cancer Center, NYC, USA
- 5 Developmental Biology Program, Memorial Sloan Kettering Cancer Center, NYC, USA
Journal of Biomedical Science and Engineering·Volume 11 (2018)·Pages 225–234·Published 14 August 2018·DOI10.4236/jbise.2018.118018
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Abstract
Recent developments in cutting-edge live microscopy and image analysis provide a unique opportunity to systematically investigate individual cell’s dynamics as well as simulation-based hypothesis testing. After a summary of data generation and analysis in the observation and modeling efforts related to C. elegans embryogenesis, we develop a systematic approach to model the basic behaviors of individual cells. Next, we present our ideas to model cell fate, division, and movement using 3D time-lapse images within an agent-based modeling framework. Then, we summarize preliminary result and discuss efforts in cell fate, division, and movement modeling. Finally, we discuss the ongoing efforts and future directions for C. elegans embryo modeling, including an inferred developmental landscape for cell fate, a quasi-equilibrium model for cell division, and multi-agent, deep reinforcement learning for cell movement.
Keywords<i>C. elegans</i>EmbryogenesisAgent-Based ModelingDeep Reinforcement LearningObservation-Driven Modeling Framework3D Live Images
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