Division of Biocomputing, Department of Biochemistry and Molecular Biology, University of New Mexico School of Medicine, Albuquerque, NM 87131, USA.
J Comput Aided Mol Des. 2012 Jan;26(1):107-12. doi: 10.1007/s10822-011-9535-9. Epub 2011 Dec 30.
For over a decade, cheminformatics has contributed to a wide array of scientific tasks from analytical chemistry and biochemistry to pharmacology and drug discovery; and although its contributions to decision making are recognized, the challenge is how it would contribute to faster development of novel, better products. Here we address the future of cheminformatics with primary focus on innovation. Cheminformatics developers often need to choose between "mainstream" (i.e., accepted, expected) and novel, leading-edge tools, with an increasing trend for open science. Possible futures for cheminformatics include the worst case scenario (lack of funding, no creative usage), as well as the best case scenario (complete integration, from systems biology to virtual physiology). As "-omics" technologies advance, and computer hardware improves, compounds will no longer be profiled at the molecular level, but also in terms of genetic and clinical effects. Among potentially novel tools, we anticipate machine learning models based on free text processing, an increased performance in environmental cheminformatics, significant decision-making support, as well as the emergence of robot scientists conducting automated drug discovery research. Furthermore, cheminformatics is anticipated to expand the frontiers of knowledge and evolve in an open-ended, extensible manner, allowing us to explore multiple research scenarios in order to avoid epistemological "local information minimum trap".
十多年来, cheminformatics 为从分析化学和生物化学到药理学和药物发现的广泛科学任务做出了贡献;尽管它对决策制定的贡献得到了认可,但挑战在于它将如何有助于更快地开发新的、更好的产品。在这里,我们主要关注创新,探讨 cheminformatics 的未来。Cheminformatics 开发人员经常需要在“主流”(即被接受、预期)和新颖的、前沿的工具之间做出选择,而开放科学的趋势越来越明显。Cheminformatics 的可能未来包括最糟糕的情况(缺乏资金、没有创造性的使用),以及最好的情况(从系统生物学到虚拟生理学的完全集成)。随着“组学”技术的进步和计算机硬件的改进,化合物将不仅在分子水平上进行分析,而且还将在遗传和临床效果方面进行分析。在潜在的新型工具中,我们预计会出现基于自由文本处理的机器学习模型、环境 cheminformatics 性能的提高、显著的决策支持,以及进行自动化药物发现研究的机器人科学家的出现。此外,预计 cheminformatics 将扩展知识的前沿,并以开放的、可扩展的方式发展,使我们能够探索多个研究场景,以避免认识论上的“局部信息最小陷阱”。