用深度学习引导遗传算法探索材料设计空间

IF 4.7 2区 生物学 Q1 GENETICS & HEREDITY Mobile DNA Pub Date : 2022-01-01 DOI:10.4230/LIPIcs.DNA.28.4
Kuan-Lin Chen, Rebecca Schulman
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引用次数: 0

摘要

设计复杂、动态但多功能的材料和设备是具有挑战性的,因为这些材料的设计空间有许多相互依存且经常相互冲突的限制。从人工智能的进步及其在材料发现中的应用中获得灵感,我们提出了一种设计变质dna共聚合水凝胶结构的计算方法。该方法由粗粒度模拟和深度学习引导优化系统组成,用于探索这些结构的巨大设计空间。在这里,我们开发了dna共聚合水凝胶形状变化的简单数值模拟,并寻求在不同驱动状态下可以折叠成不同阿拉伯数字形状的结构水凝胶的设计。我们训练卷积神经网络对粗粒度模拟的几何输出进行分类和评分,为设计优化提供自主反馈。然后,我们构建了一个遗传算法,该算法生成并选择大量相互竞争的材料设计,以进化并收敛于最优目标匹配设计。我们表明,我们能够探索更大的设计空间,并学习重要的参数和特征。我们确定了材料尺寸和单个领域可以实现的形状变化范围之间的重要关系,并阐明了不同设计参数之间的权衡。最后,我们发现材料设计能够在不同的驱动状态下转换成多个不同的数字。
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Exploring Material Design Space with a Deep-Learning Guided Genetic Algorithm
Designing complex, dynamic yet multi-functional materials and devices is challenging because the design spaces for these materials have numerous interdependent and often conflicting constraints. Taking inspiration from advances in artificial intelligence and their applications in material discovery, we propose a computational method for designing metamorphic DNA-co-polymerized hydrogel structures. The method consists of a coarse-grained simulation and a deep learning-guided optimization system for exploring the immense design space of these structures. Here, we develop a simple numeric simulation of DNA-co-polymerized hydrogel shape change and seek to find designs for structured hydrogels that can fold into the shapes of different Arabic numerals in different actuation states. We train a convolutional neural network to classify and score the geometric outputs of the coarse-grained simulation to provide autonomous feedback for design optimization. We then construct a genetic algorithm that generates and selects large batches of material designs that compete with one another to evolve and converge on optimal objective-matching designs. We show that we are able to explore the large design space and learn important parameters and traits. We identify vital relationships between the material scale size and the range of shape change that can be achieved by individual domains and we elucidate trade-offs between different design parameters. Finally, we discover material designs capable of transforming into multiple different digits in different actuation states.
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来源期刊
Mobile DNA
Mobile DNA GENETICS & HEREDITY-
CiteScore
8.20
自引率
6.10%
发文量
26
审稿时长
11 weeks
期刊介绍: Mobile DNA is an online, peer-reviewed, open access journal that publishes articles providing novel insights into DNA rearrangements in all organisms, ranging from transposition and other types of recombination mechanisms to patterns and processes of mobile element and host genome evolution. In addition, the journal will consider articles on the utility of mobile genetic elements in biotechnological methods and protocols.
期刊最新文献
Analysis of pericentromere composition and structure elucidated the history of the Hieracium alpinum L. genome, revealing waves of transposable elements insertions. International congress on transposable elements (ICTE 2024) in Saint Malo: breaking down transposon waves and their impact. Accelerating de novo SINE annotation in plant and animal genomes. Association of hyperactivated transposon expression with exacerbated immune activation in systemic lupus erythematosus. Widespread HCD-tRNA derived SINEs in bivalves rely on multiple LINE partners and accumulate in genic regions.
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