Approximate Bayesian computation reveals the importance of repeated measurements for parameterising cell-based models of growing tissues
Approximate Bayesian computation reveals the importance of repeated measurements for parameterising cell-based models of growing tissues
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DOI：
10.1016/j.jtbi.2018.01.020
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发表时间：
2018-04-14
影响因子：
2
通讯作者：
Fletcher, Alexander G.
中科院分区：
文献类型：
--
作者：
Kursawe, Jochen;Baker, Ruth E.;Fletcher, Alexander G.
上皮组织的生长和动力学控制着胚胎发育中的许多形态发生过程。最近在数据采集的定量过渡，促进了遗传和实时成像技术的进步，为这些过程的新见解铺平了道路。计算模型可以帮助我们理解和解释观察结果，然后为未来的实验做出预测，从而区分假设的机制。越来越多地，基于细胞的建模方法，如顶点模型被用来帮助理解上皮形态发生的机制。这些模型通常试图再现定性现象，例如细胞分选或组织屈曲。然而，目前还不清楚定量数据可以在多大程度上用于约束这些模型，以便它们可以用于进行定量的，实验可检验的预测。为了解决这个问题，我们进行了一项硅研究，以调查顶点模型参数是否可以从成像数据中推断出来，并探索量化这种估计的不确定性的方法。我们的方法需要使用汇总统计量来估计参数。在这里，我们专注于细胞包装和激光消融实验的统计摘要，通常从成像研究报告。我们发现，包括重复实验的数据是必要的，以产生可靠的参数估计，可以促进定量模型预测。(C)2018爱思唯尔有限公司版权所有
The growth and dynamics of epithelial tissues govern many morphogenetic processes in embryonic development. A recent quantitative transition in data acquisition, facilitated by advances in genetic and live imaging techniques, is paving the way for new insights to these processes. Computational models can help us understand and interpret observations, and then make predictions for future experiments that can distinguish between hypothesised mechanisms. Increasingly, cell-based modelling approaches such as vertex models are being used to help understand the mechanics underlying epithelial morphogenesis. These models typically seek to reproduce qualitative phenomena, such as cell sorting or tissue buckling. However, it remains unclear to what extent quantitative data can be used to constrain these models so that they can then be used to make quantitative, experimentally testable predictions. To address this issue, we perform an in silica study to investigate whether vertex model parameters can be inferred from imaging data, and explore methods to quantify the uncertainty of such estimates. Our approach requires the use of summary statistics to estimate parameters. Here, we focus on summary statistics of cellular packing and of laser ablation experiments, as are commonly reported from imaging studies. We find that including data from repeated experiments is necessary to generate reliable parameter estimates that can facilitate quantitative model predictions. (C) 2018 Elsevier Ltd. All rights reserved.