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稀疏 QSAR 建模方法在治疗和再生医学中的应用。

Sparse QSAR modelling methods for therapeutic and regenerative medicine.

机构信息

Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, 3052, Australia.

La Trobe Institute for Molecular Science, La Trobe University, Kingsbury Drive, Bundoora, 3086, Australia.

出版信息

J Comput Aided Mol Des. 2018 Apr;32(4):497-509. doi: 10.1007/s10822-018-0106-1. Epub 2018 Feb 14.

DOI:10.1007/s10822-018-0106-1
PMID:29445894
Abstract

The quantitative structure-activity relationships method was popularized by Hansch and Fujita over 50 years ago. The usefulness of the method for drug design and development has been shown in the intervening years. As it was developed initially to elucidate which molecular properties modulated the relative potency of putative agrochemicals, and at a time when computing resources were scarce, there is much scope for applying modern mathematical methods to improve the QSAR method and to extending the general concept to the discovery and optimization of bioactive molecules and materials more broadly. I describe research over the past two decades where we have rebuilt the unit operations of the QSAR method using improved mathematical techniques, and have applied this valuable platform technology to new important areas of research and industry such as nanoscience, omics technologies, advanced materials, and regenerative medicine. This paper was presented as the 2017 ACS Herman Skolnik lecture.

摘要

50 多年前,Hansch 和 Fujita 推广了定量构效关系方法。该方法在药物设计和开发方面的有效性在这些年已经得到了证明。由于该方法最初是为了阐明哪些分子性质调节了潜在农用化学品的相对效力,并且当时计算资源稀缺,因此有很大的空间可以应用现代数学方法来改进 QSAR 方法,并将这一普遍概念扩展到更广泛的生物活性分子和材料的发现和优化中。我描述了过去二十年来的研究,我们使用改进的数学技术重建了 QSAR 方法的单元操作,并将这一有价值的平台技术应用于新的重要研究和工业领域,如纳米科学、组学技术、先进材料和再生医学。本文作为 2017 年美国化学会赫尔曼·斯考尼克讲座发表。

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本文引用的文献

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Prediction of Broad-Spectrum Pathogen Attachment to Coating Materials for Biomedical Devices.预测广谱病原体对生物医学设备涂层材料的附着。
ACS Appl Mater Interfaces. 2018 Jan 10;10(1):139-149. doi: 10.1021/acsami.7b14197. Epub 2018 Jan 2.
2
Materials Genome in Action: Identifying the Performance Limits of Physical Hydrogen Storage.材料基因组付诸实践:确定物理储氢的性能极限
Chem Mater. 2017 Apr 11;29(7):2844-2854. doi: 10.1021/acs.chemmater.6b04933. Epub 2017 Mar 8.
3
Performance of Deep and Shallow Neural Networks, the Universal Approximation Theorem, Activity Cliffs, and QSAR.
深度神经网络和浅层神经网络的性能、通用逼近定理、活动悬崖和定量构效关系。
Mol Inform. 2017 Jan;36(1-2). doi: 10.1002/minf.201600118. Epub 2016 Oct 26.
4
Discovery and Optimization of Materials Using Evolutionary Approaches.利用进化方法发现和优化材料。
Chem Rev. 2016 May 25;116(10):6107-32. doi: 10.1021/acs.chemrev.5b00691. Epub 2016 May 12.
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Optimization of drug combinations using Feedback System Control.利用反馈系统控制优化药物组合。
Nat Protoc. 2016 Feb;11(2):302-15. doi: 10.1038/nprot.2016.017. Epub 2016 Jan 14.
6
Understanding the Roles of the "Two QSARs".理解“两个定量构效关系”的作用。
J Chem Inf Model. 2016 Feb 22;56(2):269-74. doi: 10.1021/acs.jcim.5b00229. Epub 2016 Jan 20.
7
Recent advances, and unresolved issues, in the application of computational modelling to the prediction of the biological effects of nanomaterials.计算模型在纳米材料生物效应预测应用方面的最新进展及未解决的问题。
Toxicol Appl Pharmacol. 2016 May 15;299:96-100. doi: 10.1016/j.taap.2015.12.016. Epub 2015 Dec 23.
8
Relevance Vector Machines: Sparse Classification Methods for QSAR.相关向量机:定量构效关系的稀疏分类方法
J Chem Inf Model. 2015 Aug 24;55(8):1529-34. doi: 10.1021/acs.jcim.5b00261. Epub 2015 Jul 21.
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Beware of R(2): Simple, Unambiguous Assessment of the Prediction Accuracy of QSAR and QSPR Models.谨防R(2):对定量构效关系和定量构性关系模型预测准确性的简单、明确评估。
J Chem Inf Model. 2015 Jul 27;55(7):1316-22. doi: 10.1021/acs.jcim.5b00206. Epub 2015 Jul 9.
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A Bright Future for Evolutionary Methods in Drug Design.药物设计中进化方法的光明未来。
ChemMedChem. 2015 Aug;10(8):1296-300. doi: 10.1002/cmdc.201500161. Epub 2015 Jun 9.