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首页> 外文期刊>Philosophical Transactions of the Royal Society of London, Series B. Biological Sciences >Towards systematic, data-driven validation of a collaborative, multi-scale model of Caenorhabditis elegans
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Towards systematic, data-driven validation of a collaborative, multi-scale model of Caenorhabditis elegans

机译：朝着系统，数据驱动的Caenorhabditis elegans的协作，多标准模型的系统驱动验证

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摘要

The OpenWorm Project is an international open-source collaboration to create a multi-scale model of the organism Caenorhabditis elegans. At each scale, including subcellular, cellular, network and behaviour, this project employs one or more computational models that aim to recapitulate the corresponding biological system at that scale. This requires that the simulated behaviour of each model be compared with experimental data both as the model is continuously refined and as new experimental data become available. Here we report the use of SciUnit, a software framework for model validation, to attempt to achieve these goals. During project development, each model is continuously subjected to data-driven 'unit tests' that quantitatively summarize model-data agreement, identifying modelling progress and highlighting particular aspects of each model that fail to adequately reproduce known features of the biological organism and its components. This workflow is publicly visible via both GitHub and a web application and accepts community contributions to ensure that modelling goals are transparent and well-informed.
机译：露营项目是一个国际开源合作，以创建一个多标秀丽秀秀丽隐塞的生物体模型。在每种规模，包括亚细胞，蜂窝，网络和行为，该项目采用一个或多个计算模型，该计算模型旨在在该规模上重新承载相应的生物系统。这要求每个模型的模拟行为与实验数据相比，因为模型被连续地精制并且随着新的实验数据可用。在这里，我们报告使用SCIUnit，模型验证的软件框架，以尝试实现这些目标。在项目开发期间，每个模型都是连续进行数据驱动的“单元测试”，可以定量总结模型数据协议，识别模型进度，并突出显示每个模型的特定方面，该模型不能充分再现生物体及其组分的已知特征。此工作流程通过GitHub和Web应用程序公开可见，并接受社区贡献，以确保建模目标是透明和信息的。

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