8,545 research outputs found
From Models to Simulations
This book analyses the impact computerization has had on contemporary science and explains the origins, technical nature and epistemological consequences of the current decisive interplay between technology and science: an intertwining of formalism, computation, data acquisition, data and visualization and how these factors have led to the spread of simulation models since the 1950s.
Using historical, comparative and interpretative case studies from a range of disciplines, with a particular emphasis on the case of plant studies, the author shows how and why computers, data treatment devices and programming languages have occasioned a gradual but irresistible and massive shift from mathematical models to computer simulations
Computational morphodynamics of plants: integrating development over space and time
The emerging field of computational morphodynamics aims to
understand the changes that occur in space and time during development by combining three technical strategies: live imaging to observe development as it happens; image processing and analysis to extract quantitative information;
and computational modelling to express and test time-dependent hypotheses. The strength of the field comes from the iterative and combined use of these techniques, which has provided important insights into plant development
Mechanical Stress Inference for Two Dimensional Cell Arrays
Many morphogenetic processes involve mechanical rearrangement of epithelial
tissues that is driven by precisely regulated cytoskeletal forces and cell
adhesion. The mechanical state of the cell and intercellular adhesion are not
only the targets of regulation, but are themselves likely signals that
coordinate developmental process. Yet, because it is difficult to directly
measure mechanical stress {\it in vivo} on sub-cellular scale, little is
understood about the role of mechanics of development. Here we present an
alternative approach which takes advantage of the recent progress in live
imaging of morphogenetic processes and uses computational analysis of high
resolution images of epithelial tissues to infer relative magnitude of forces
acting within and between cells. We model intracellular stress in terms of bulk
pressure and interfacial tension, allowing these parameters to vary from cell
to cell and from interface to interface. Assuming that epithelial cell layers
are close to mechanical equilibrium, we use the observed geometry of the two
dimensional cell array to infer interfacial tensions and intracellular
pressures. Here we present the mathematical formulation of the proposed
Mechanical Inverse method and apply it to the analysis of epithelial cell
layers observed at the onset of ventral furrow formation in the {\it
Drosophila} embryo and in the process of hair-cell determination in the avian
cochlea. The analysis reveals mechanical anisotropy in the former process and
mechanical heterogeneity, correlated with cell differentiation, in the latter
process. The method opens a way for quantitative and detailed experimental
tests of models of cell and tissue mechanics
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Single-cell approaches for understanding morphogenesis using Computational Morphodynamics
In multicellular organisms cells grow, divide and adopt different fates, resulting in tissues and organs with specific functions. In recent years, a number of studies have brought quantitative knowledge about how these processes are orchestrated, shed-ding new light on cells as active and central players in morphogenesis. We explore recent advances in understanding plant morphogenesis from a quantitative perspective, defining the re-search field of Computational Morphodynamics. The focus is on studies combining theoretical and experimental approaches integrating hypotheses of how molecular and mechanical regulation at the cellular level lead to tissue behaviour. Finally, we dis-cuss some of the main challenges for future work
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