On-demand reverse design of polymers with PolyTAO

IF 9.4 1区 材料科学 Q1 CHEMISTRY, PHYSICAL npj Computational Materials Pub Date : 2024-11-29 DOI:10.1038/s41524-024-01466-5
Haoke Qiu, Zhao-Yan Sun
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Abstract

The forward screening and reverse design of drug molecules, inorganic molecules, and polymers with enhanced properties are vital for accelerating the transition from laboratory research to market application. Specifically, due to the scarcity of large-scale datasets, the discovery of polymers via materials informatics is particularly challenging. Nonetheless, scientists have developed various machine learning models for polymer structure-property relationships using only small polymer datasets, thereby advancing the forward screening process of polymers. However, the success of this approach ultimately depends on the diversity of the candidate pool, and exhaustively enumerating all possible polymer structures through human imagination is impractical. Consequently, achieving on-demand reverse design of polymers is essential. In this work, we curate an immense polymer dataset containing nearly one million polymeric structure-property pairs based on expert knowledge. Leveraging this dataset, we propose a Transformer-Assisted Oriented pretrained model for on-demand polymer generation (PolyTAO). This model generates polymers with 99.27% chemical validity in top-1 generation mode (approximately 200k generated polymers), representing the highest reported success rate among polymer generative models, and this was achieved on the largest test set. Importantly, the average R2 between the properties of the generated polymers and their expected values across 15 predefined properties is 0.96, which underscores PolyTAO’s powerful on-demand polymer generation capabilities. To further evaluate the pretrained model’s performance in generating polymers with additional user-defined properties for downstream tasks, we conduct fine-tuning experiments on three publicly available small polymer datasets using both semi-template and template-free generation paradigms. Through these extensive experiments, we demonstrate that our pretrained model and its fine-tuned versions are capable of achieving the on-demand reverse design of polymers with specified properties, whether in a semi-template generation or the more challenging template-free generation scenarios, showcasing its potential as a unified pretrained foundation model for polymer generation.

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基于PolyTAO的聚合物按需逆向设计
药物分子、无机分子和聚合物的正向筛选和反向设计对于加速从实验室研究到市场应用的过渡至关重要。具体来说,由于缺乏大规模数据集,通过材料信息学发现聚合物特别具有挑战性。尽管如此,科学家们已经开发了各种聚合物结构-性质关系的机器学习模型,仅使用小的聚合物数据集,从而推进了聚合物的前瞻性筛选过程。然而,这种方法的成功最终取决于候选池的多样性,通过人类的想象详尽地列举所有可能的聚合物结构是不切实际的。因此,实现按需逆向设计的聚合物是必不可少的。在这项工作中,我们整理了一个巨大的聚合物数据集,其中包含近一百万对基于专家知识的聚合物结构-性能对。利用该数据集,我们提出了一个按需聚合物生成(PolyTAO)的变压器辅助定向预训练模型。该模型在top-1生成模式下生成的聚合物具有99.27%的化学有效性(大约生成了200k个聚合物),代表了聚合物生成模型中最高的成功率,这是在最大的测试集上实现的。重要的是,所生成的聚合物的性质与15种预定义性质的期望值之间的平均R2为0.96,这表明PolyTAO具有强大的按需聚合物生成能力。为了进一步评估预训练模型在为下游任务生成具有额外用户定义属性的聚合物方面的性能,我们使用半模板和无模板生成范式在三个公开的小型聚合物数据集上进行了微调实验。通过这些广泛的实验,我们证明了我们的预训练模型及其微调版本能够实现具有特定属性的聚合物的按需反向设计,无论是在半模板生成还是更具挑战性的无模板生成场景中,都展示了其作为聚合物生成的统一预训练基础模型的潜力。
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来源期刊
npj Computational Materials
npj Computational Materials Mathematics-Modeling and Simulation
CiteScore
15.30
自引率
5.20%
发文量
229
审稿时长
6 weeks
期刊介绍: npj Computational Materials is a high-quality open access journal from Nature Research that publishes research papers applying computational approaches for the design of new materials and enhancing our understanding of existing ones. The journal also welcomes papers on new computational techniques and the refinement of current approaches that support these aims, as well as experimental papers that complement computational findings. Some key features of npj Computational Materials include a 2-year impact factor of 12.241 (2021), article downloads of 1,138,590 (2021), and a fast turnaround time of 11 days from submission to the first editorial decision. The journal is indexed in various databases and services, including Chemical Abstracts Service (ACS), Astrophysics Data System (ADS), Current Contents/Physical, Chemical and Earth Sciences, Journal Citation Reports/Science Edition, SCOPUS, EI Compendex, INSPEC, Google Scholar, SCImago, DOAJ, CNKI, and Science Citation Index Expanded (SCIE), among others.
期刊最新文献
SPACIER: on-demand polymer design with fully automated all-atom classical molecular dynamics integrated into machine learning pipelines Exploring parameter dependence of atomic minima with implicit differentiation Active oversight and quality control in standard Bayesian optimization for autonomous experiments Feature engineering descriptors, transforms, and machine learning for grain boundaries and variable-sized atom clusters Machine learning Hubbard parameters with equivariant neural networks
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