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基于低成本构象体信息的图神经网络的重新组织能量预测。

Reorganization Energy Predictions with Graph Neural Networks Informed by Low-Cost Conformers.

机构信息

Department of Chemistry, Texas A&M University, College Station, Texas 77843, United States.

出版信息

J Phys Chem A. 2023 Apr 20;127(15):3484-3489. doi: 10.1021/acs.jpca.2c09030. Epub 2023 Apr 5.

DOI:10.1021/acs.jpca.2c09030
PMID:37017992
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10848248/
Abstract

A critical bottleneck for the design of high-conductivity organic materials is finding molecules with low reorganization energy. To enable high-throughput virtual screening campaigns for many types of organic electronic materials, a fast reorganization energy prediction method compared to density functional theory is needed. However, the development of low-cost machine-learning-based models for calculating the reorganization energy has proven to be challenging. In this paper, we combine a 3D graph-based neural network (GNN) recently benchmarked for drug design applications, ChIRo, with low-cost conformational features for reorganization energy predictions. By comparing the performance of ChIRo to another 3D GNN, SchNet, we find evidence that the bond-invariant property of ChIRo enables the model to learn from low-cost conformational features more efficiently. Through an ablation study with a 2D GNN, we find that using low-cost conformational features on top of 2D features informs the model for making more accurate predictions. Our results demonstrate the feasibility of reorganization energy predictions on the benchmark QM9 data set without needing DFT-optimized geometries and demonstrate the types of features needed for robust models that work on diverse chemical spaces. Furthermore, we show that ChIRo informed with low-cost conformational features achieves comparable performance with the previously reported structure-based model on π-conjugated hydrocarbon molecules. We expect this class of methods can be applied to the high-throughput screening of high-conductivity organic electronics candidates.

摘要

对于设计高导电性有机材料来说,找到重组能低的分子是一个关键的瓶颈。为了能够对许多类型的有机电子材料进行高通量虚拟筛选,需要一种比密度泛函理论更快的重组能预测方法。然而,开发用于计算重组能的低成本机器学习模型一直具有挑战性。在本文中,我们将最近在药物设计应用中进行基准测试的基于 3D 图的神经网络(GNN)ChIRo 与低成本构象特征相结合,用于重组能预测。通过将 ChIRo 与另一个 3D GNN SchNet 的性能进行比较,我们有证据表明 ChIRo 的键不变性质使模型能够更有效地从低成本构象特征中学习。通过对 2D GNN 的消融研究,我们发现,在 2D 特征的基础上使用低成本构象特征可以为模型提供更准确的预测。我们的结果表明,在不需要 DFT 优化几何结构的情况下,在基准 QM9 数据集上进行重组能预测是可行的,并证明了对于在不同化学空间中工作的稳健模型所需的特征类型。此外,我们表明,经过低成本构象特征信息增强的 ChIRo 在π共轭碳氢化合物分子上与之前报道的基于结构的模型具有可比的性能。我们预计这种方法可以应用于高导电性有机电子候选物的高通量筛选。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/a2b0b9fe2593/jp2c09030_0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/06d6d622009b/jp2c09030_0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/be167974150d/jp2c09030_0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/a2b0b9fe2593/jp2c09030_0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/06d6d622009b/jp2c09030_0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/be167974150d/jp2c09030_0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/557b/10848248/a2b0b9fe2593/jp2c09030_0003.jpg

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