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Guiding Deep Molecular Optimization with Genetic Exploration
arXiv - CS - Neural and Evolutionary Computing Pub Date : 2020-07-04 , DOI: arxiv-2007.04897
Sungsoo Ahn, Junsu Kim, Hankook Lee, Jinwoo Shin

De novo molecular design attempts to search over the chemical space for molecules with the desired property. Recently, deep learning has gained considerable attention as a promising approach to solve the problem. In this paper, we propose genetic expert-guided learning (GEGL), a simple yet novel framework for training a deep neural network (DNN) to generate highly-rewarding molecules. Our main idea is to design a "genetic expert improvement" procedure, which generates high-quality targets for imitation learning of the DNN. Extensive experiments show that GEGL significantly improves over state-of-the-art methods. For example, GEGL manages to solve the penalized octanol-water partition coefficient optimization with a score of 31.40, while the best-known score in the literature is 27.22. Besides, for the GuacaMol benchmark with 20 tasks, our method achieves the highest score for 19 tasks, in comparison with state-of-the-art methods, and newly obtains the perfect score for three tasks.

中文翻译:

用遗传探索指导深度分子优化

从头分子设计试图在化学空间中搜索具有所需特性的分子。最近,深度学习作为解决该问题的一种有前途的方法受到了广泛关注。在本文中,我们提出了遗传专家指导学习 (GEGL),这是一种简单而新颖的框架,用于训练深度神经网络 (DNN) 以生成高回报分子。我们的主要思想是设计一个“遗传专家改进”程序,为 DNN 的模仿学习生成高质量的目标。大量实验表明,GEGL 显着改善了最先进的方法。例如,GEGL 设法解决了惩罚性辛醇-水分配系数优化问题,得分为 31.40,而文献中最著名的得分为 27.22。此外,对于 20 个任务的 GuacaMol 基准测试,
更新日期:2020-10-28
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