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通过化学空间网络进行知识发现:以有机电子学为例。

Knowledge discovery through chemical space networks: the case of organic electronics.

作者信息

Kunkel Christian, Schober Christoph, Oberhofer Harald, Reuter Karsten

机构信息

Chair for Theoretical Chemistry and Catalysis Research Center, Technische Universität München, Lichtenbergstraße 4, 85747, Garching, Germany.

出版信息

J Mol Model. 2019 Mar 7;25(4):87. doi: 10.1007/s00894-019-3950-6.

DOI:10.1007/s00894-019-3950-6
PMID:30847684
Abstract

Modern materials discovery and design studies often rely on the computational screening of large databases. Complementing experimental databases, virtual databases are thereby increasingly established through the first-principles calculation of computationally inexpensive, but for a given application, decisive microscopic quantities of the system. These so-called descriptors are calculated for vast numbers of candidate materials. In general, the sheer volume of datapoints generated in such studies precludes an in depth human analysis. To this end, smart visualization techniques, based e.g., on so-called chemical space networks (CSN), have been developed to extract general design rules connecting structural modifications to changes in the target functionality. In this work, we generate and visualize the CSN of possible crystalline organic semiconductors based on an in-house database of > 64,000 molecular crystals that we extracted from the exhaustive Cambridge Structural Database and for which we computed prominent charge-mobility descriptors. Our CSN thereby links clusters of molecular crystals based on the chemical similarity of the scaffolds of their molecular building blocks and thus groups communities of similar molecules. Including each cluster's median descriptor values, the CSN visualization not only reproduces known trends of good organic semiconductors but also allows us to extract general design rules for organic molecular scaffolds. Finally, the local environment of each scaffold in our visualization shows how thoroughly its local chemical space has already been explored synthetically. Of special interest here are those clusters with promising descriptor values, yet with little or no connections in the sampled chemical space, as these offer the most room for scaffold optimization.

摘要

现代材料发现与设计研究通常依赖于对大型数据库的计算筛选。作为实验数据库的补充,虚拟数据库因此越来越多地通过对计算成本较低但对于给定应用而言具有决定性的系统微观量进行第一性原理计算来建立。这些所谓的描述符是针对大量候选材料计算得出的。一般来说,此类研究中产生的数据点数量巨大,使得深入的人工分析难以实现。为此,已经开发了基于例如所谓化学空间网络(CSN)的智能可视化技术,以提取将结构修饰与目标功能变化联系起来的通用设计规则。在这项工作中,我们基于一个内部数据库生成并可视化了可能的结晶有机半导体的CSN,该数据库包含我们从详尽的剑桥结构数据库中提取的超过64000个分子晶体,并且我们为其计算了突出的电荷迁移率描述符。我们的CSN由此基于分子构建单元支架的化学相似性将分子晶体簇联系起来,从而对相似分子群落进行分组。包括每个簇的中位描述符值,CSN可视化不仅再现了已知的良好有机半导体趋势,还使我们能够提取有机分子支架的通用设计规则。最后,我们可视化中每个支架的局部环境展示了其局部化学空间在合成方面已被探索的程度。这里特别有趣的是那些具有有前景的描述符值但在采样化学空间中连接很少或没有连接的簇,因为这些簇为支架优化提供了最大的空间。

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本文引用的文献

1
Computational Fragment-Based Drug Design: Current Trends, Strategies, and Applications.基于片段的药物计算机辅助设计:当前趋势、策略和应用。
AAPS J. 2018 Apr 9;20(3):59. doi: 10.1208/s12248-018-0216-7.
2
The hitchhiker's guide to the chemical-biological galaxy.化学-生物银河的搭便车指南。
Drug Discov Today. 2018 Mar;23(3):565-574. doi: 10.1016/j.drudis.2018.01.007. Epub 2018 Jan 9.
3
Organic semiconductor crystals.有机半导体晶体。
从天然产物紫菜-334中学到的分子设计:通过化学变分自编码器进行分子生成与通过相似性搜索进行数据库挖掘的比较研究
ACS Omega. 2022 Mar 2;7(10):8581-8590. doi: 10.1021/acsomega.1c06453. eCollection 2022 Mar 15.
4
Active discovery of organic semiconductors.有机半导体的主动发现。
Nat Commun. 2021 Apr 23;12(1):2422. doi: 10.1038/s41467-021-22611-4.
5
Big-Data Science in Porous Materials: Materials Genomics and Machine Learning.多孔材料中的大数据科学:材料基因组学与机器学习。
Chem Rev. 2020 Aug 26;120(16):8066-8129. doi: 10.1021/acs.chemrev.0c00004. Epub 2020 Jun 10.
6
Atomic structures and orbital energies of 61,489 crystal-forming organic molecules.61489种形成晶体的有机分子的原子结构和轨道能量
Sci Data. 2020 Feb 18;7(1):58. doi: 10.1038/s41597-020-0385-y.
Chem Soc Rev. 2018 Jan 22;47(2):422-500. doi: 10.1039/c7cs00490g.
4
Context-Driven Exploration of Complex Chemical Reaction Networks.复杂化学反应网络的上下文驱动探索
J Chem Theory Comput. 2017 Dec 12;13(12):6108-6119. doi: 10.1021/acs.jctc.7b00945. Epub 2017 Nov 8.
5
Network approaches and applications in biology.生物学中的网络方法与应用。
PLoS Comput Biol. 2017 Oct 12;13(10):e1005771. doi: 10.1371/journal.pcbi.1005771. eCollection 2017 Oct.
6
Platform for Unified Molecular Analysis: PUMA.统一分子分析平台:PUMA
J Chem Inf Model. 2017 Aug 28;57(8):1735-1740. doi: 10.1021/acs.jcim.7b00253. Epub 2017 Aug 8.
7
The Fragment Network: A Chemistry Recommendation Engine Built Using a Graph Database.片段网络:一个使用图形数据库构建的化学推荐引擎。
J Med Chem. 2017 Jul 27;60(14):6440-6450. doi: 10.1021/acs.jmedchem.7b00809. Epub 2017 Jul 15.
8
Charge Transport in Molecular Materials: An Assessment of Computational Methods.分子材料中的电荷输运:计算方法评估。
Chem Rev. 2017 Aug 9;117(15):10319-10357. doi: 10.1021/acs.chemrev.7b00086. Epub 2017 Jun 23.
9
Mapping of Drug-like Chemical Universe with Reduced Complexity Molecular Frameworks.具有简化分子构架的类药物化学体系的图谱绘制。
J Chem Inf Model. 2017 Apr 24;57(4):680-699. doi: 10.1021/acs.jcim.7b00006. Epub 2017 Apr 12.
10
Tuning the ambipolar charge transport properties of tricyanovinyl-substituted carbazole-based materials.
Phys Chem Chem Phys. 2017 Mar 1;19(9):6721-6730. doi: 10.1039/c6cp08078b.