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Mol-Zero-GAN:针对特定蛋白质靶点的分子生成对抗网络的零样本适应

Mol-Zero-GAN: zero-shot adaptation of molecular generative adversarial network for specific protein targets.

作者信息

Aphikulvanich Ravipas, Pornputtapong Natapol, Wichadakul Duangdao

机构信息

Department of Computer Engineering, Faculty of Engineering, Chulalongkorn University Bangkok 10330 Thailand

Department of Biochemistry and Microbiology, Faculty of Pharmaceutical Sciences, Chulalongkorn University Bangkok 10330 Thailand

出版信息

RSC Adv. 2023 Dec 12;13(51):36048-36059. doi: 10.1039/d3ra03954d. eCollection 2023 Dec 8.

Abstract

Drug discovery is a process that finds new potential drug candidates for curing diseases and is also vital to improving the wellness of people. Enhancing deep learning approaches, , molecular generation models, increases the drug discovery process's efficiency. However, there is a problem in this field in creating drug candidates with desired properties such as the quantitative estimate of druglikeness (QED), synthetic accessibility (SA), and binding affinity (BA), and there is a challenge for training a generative model for specific protein targets that has less pharmaceutical data. In this research, we present Mol-Zero-GAN, a framework that aims to solve the problem based on Bayesian optimization (BO) to find the model optimal weights' singular values, factorized by singular value decomposition, and generate drug candidates with desired properties with no additional data. The proposed framework can produce drugs with the desired properties on protein targets of interest by optimizing the model's weights. Our framework outperforms the state-of-the-art methods sharing the same objectives. Mol-Zero-GAN is publicly available at https://github.com/cucpbioinfo/Mol-Zero-GAN.

摘要

药物发现是一个寻找治疗疾病新潜在药物候选物的过程,对改善人们的健康状况也至关重要。增强深度学习方法,即分子生成模型,可提高药物发现过程的效率。然而,在该领域中,创建具有所需特性(如类药性质的定量估计(QED)、合成可及性(SA)和结合亲和力(BA))的药物候选物存在问题,并且对于训练针对特定蛋白质靶点且药物数据较少的生成模型存在挑战。在本研究中,我们提出了Mol-Zero-GAN,这是一个旨在基于贝叶斯优化(BO)解决该问题的框架,通过奇异值分解找到模型最优权重的奇异值,并在无需额外数据的情况下生成具有所需特性的药物候选物。所提出的框架可以通过优化模型权重来产生针对感兴趣蛋白质靶点具有所需特性的药物。我们的框架优于具有相同目标的现有方法。Mol-Zero-GAN可在https://github.com/cucpbioinfo/Mol-Zero-GAN上公开获取。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d428/10714197/d18bb6fc6b92/d3ra03954d-f1.jpg

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