Journal of Shanghai Jiao Tong University ›› 2023, Vol. 57 ›› Issue (10): 1231-1244.doi: 10.16183/j.cnki.jsjtu.2023.078
Special Issue: 《上海交通大学学报》2023年“化学化工”专题
• Chemistry and Chemical Engineering • Next Articles
SUN Jie, LI Zihao, ZHANG Shuyu(
)
Received:2023-03-06
Revised:2023-05-12
Accepted:2023-05-16
Online:2023-10-28
Published:2023-11-01
Contact:
ZHANG Shuyu
E-mail:zhangsy16@sjtu.edu.cn
CLC Number:
SUN Jie, LI Zihao, ZHANG Shuyu. Application of Machine Learning in Chemical Synthesis and Characterization[J]. Journal of Shanghai Jiao Tong University, 2023, 57(10): 1231-1244.
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URL: https://xuebao.sjtu.edu.cn/EN/10.16183/j.cnki.jsjtu.2023.078
Tab.1
Common molecular descriptors(ethyl phenol as an example)
| 描述符名称 | 表现形式 | 优势 | 不足 | 适用范围 |
|---|---|---|---|---|
| SMILES[ SMARTS[ Inchl字符 | SMILES: CC(OC1=CC=CC=C1)=O SMATRS: [C]-[C](-[O]-[C]1: [C]: [C]: [C]: [C]: [C]: 1)=[O] Inchl: 1S/C8H8O2/c1-7(9)10-8-5-3-2-4-6-8/h2-6H, 1H3 | 采用线性方法对分子进行表示,简单易操作;不同分子的SMILES不同,具有唯一性;占用内存小,节省存储空间. | 丢失分子的三维信息;每个SMILES字符串对分子图的表示方法不唯一,即可从不同方向对分子图进行编码. | 不需要分子空间信息;需要大量数据进行训练的模型. |
| 分子指纹 | 图示① | 采用比特量形式表示分子,编解码简单;能够表示分子的局部信息;分子的特征之间相互独立. | 分子信息存在冗余,占用存储空间大;计算时间长,每次计算需要进行遍历. | 擅长计算分子之间的相似性;描述分子的部分结构信息. |
| 分子图 | 图示② | 分子可视性强;描述符可解释性强;能够描述分子的三维信息. | 信息传递更新过程慢,计算过程复杂. | 图神经网络模型的输入;需要分子空间信息的场合. |
| 量子化学描述符 | 过渡态能量[ | 能够精准计算分子的化学和物理性质. | 计算时间长;计算过程繁琐. | 需精确描述分子性质的场合. |
Tab.2
Application of ML in chemical synthesis and characterization
| ML算法 | 注意事项/适用范围 | 应用实例 |
|---|---|---|
| SL-回归 | 研究自变量和其他变量之间的关系.一般使用不同模型进行拟合和交叉验证获得最优模型,具有很强的鲁棒性和容错性.需要考虑变量之间的相关性时采用多层回归,常用的NN模型能够无限逼近复杂的非线性模型,并行处理能力强,但是需要大量数据,输出结果的可解释性较弱. | 逻辑回归:预测催化反应产率[ 多元LR:预测不对称反应中的对映选择性的关键参数[ 多种回归模型进行比较:预测反应产率[ NN:正向反应预测[ NN:从反应底物预测产物[ NN:预测有机分子亲核性[ |
| SL-分类 | 对待测数据进行分类,通常是几种算法之间比较评估得出最优模型用于后续预测分析.RF算法可以保证分类节点特征的最优性但要避免过拟合现象,ET算法可以使节点特征选择具有随机性和最优性.SVM算法可以处理非线性数据,但需要进行线性化操作,将其转化为高维线性数据. | RF、SVM、ANN:预测有机分子的水溶性[ RF、SVM:预测交叉偶联反应各种潜在抑制配体的反应性能[ RF:有机化合物的紫外-可见光谱分类[ RF:设计催化剂[ RF:预测反应类型[ ET、RF:不对称区域选择性预测[ |
| 贝叶斯理论 | 以贝叶斯公式为核心,模型容易理解,对小规模数据表现良好,过程简单,适合于小规模数据集的多分类问题,需要注意使用该理论时要有独立分布的假设前提. | 贝叶斯优化器:优化反应条件[ 贝叶斯图卷积网络:预测分子表皮生长因子受体抑制活性[ 贝叶斯学习:预测金属位点反应性质[ |
| RL | 从环境中学习信息,比其他方法更加智能化.奖励函数的设计是整个过程的核心,适合用于反应条件的优化问题,但采样数据的效率不高. | RL:迭代化学反应结果,优化化学反应[ 分子图+RL:分子设计[ SMILES字符串+RL:药物设计合成[ 分子图+RL:药物设计合成[ |
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