Chair of Computational Science, ETH Zürich , Clausiusstrasse 33, CH-8092, Zürich, Switzerland.
J Phys Chem B. 2013 Nov 27;117(47):14808-16. doi: 10.1021/jp4084713. Epub 2013 Nov 14.
For over five decades, molecular dynamics (MD) simulations have helped to elucidate critical mechanisms in a broad range of physiological systems and technological innovations. MD simulations are synergetic with experiments, relying on measurements to calibrate their parameters and probing "what if scenarios" for systems that are difficult to investigate experimentally. However, in certain systems, such as nanofluidics, the results of experiments and MD simulations differ by several orders of magnitude. This discrepancy may be attributed to the spatiotemporal scales and structural information accessible by experiments and simulations. Furthermore, MD simulations rely on parameters that are often calibrated semiempirically, while the effects of their computational implementation on their predictive capabilities have only been sporadically probed. In this work, we show that experimental and MD investigations can be consolidated through a rigorous uncertainty quantification framework. We employ a Bayesian probabilistic framework for large scale MD simulations of graphitic nanostructures in aqueous environments. We assess the uncertainties in the MD predictions for quantities of interest regarding wetting behavior and hydrophobicity. We focus on three representative systems: water wetting of graphene, the aggregation of fullerenes in aqueous solution, and the water transport across carbon nanotubes. We demonstrate that the dominant mode of calibrating MD potentials in nanoscale fluid mechanics, through single values of water contact angle on graphene, leads to large uncertainties and fallible quantitative predictions. We demonstrate that the use of additional experimental data reduces uncertainty, improves the predictive accuracy of MD models, and consolidates the results of experiments and simulations.
五十多年来,分子动力学(MD)模拟帮助阐明了广泛的生理系统和技术创新中的关键机制。MD 模拟与实验相辅相成,依赖于测量来校准其参数,并对难以通过实验研究的系统进行“如果......会怎样”的探测。然而,在某些系统中,如纳流,实验和 MD 模拟的结果相差几个数量级。这种差异可能归因于实验和模拟可获取的时空尺度和结构信息。此外,MD 模拟依赖于通常通过半经验校准的参数,而其计算实现对其预测能力的影响仅得到零星探测。在这项工作中,我们展示了通过严格的不确定性量化框架可以整合实验和 MD 研究。我们采用贝叶斯概率框架对水相中的石墨纳米结构进行大规模 MD 模拟。我们评估了关于润湿性和疏水性的 MD 预测的感兴趣量的不确定性。我们重点研究了三个代表性系统:石墨烯的水润湿、富勒烯在水溶液中的聚集以及碳纳米管的水传输。我们证明了在纳米尺度流体力学中通过石墨烯上的单一水接触角校准 MD 势的主导模式会导致较大的不确定性和不可靠的定量预测。我们证明了使用额外的实验数据可以降低不确定性,提高 MD 模型的预测准确性,并整合实验和模拟的结果。