简单地挑战复杂性:重新思考单步模型在计算机辅助合成规划中的作用
Junren Li1, Kangjie Lin1, Jianfeng Pei2
1BNLMS, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
Journal of chemical information and modeling
|June 28, 2024
概括
先进的深度学习模型擅长单步预测,但模板列举对于药物发现中复杂的回合成路线规划更有效. 这凸显了效率和知识评分对于实际计算机辅助合成的重要性.
科学领域:
- 计算化学计算化学
- 药用化学 医学化学
- 药物发现 药物发现 药物发现
背景情况:
- 计算机辅助合成计划对于加速药物发现至关重要.
- 深度学习模型在单步逆合成预测中表现出高准确度.
- 这些模型在多步复合路线规划中的有效性需要评估.
研究的目的:
- 为了比较先进的深度学习模型与模板计数方法用于回合成路线规划.
- 在现实世界药物分子数据集上评估性能.
- 确定最有效的策略,用于复杂的合成规划.
主要方法:
- 复杂的单步深度学习模型与简单的模板列举方法的比较.
- 使用模板清算方法利用基于启发式的回归合成知识得分.
- 在真实世界药物分子的数据集上评估性能.
主要成果:
- 模板计数在搜索反应空间的效率方面超过了先进的模型.
- 模板计数方法在相同的时间框架内实现了更高或可比的解决率.
- 尽管深度学习模型的单步精度更高,但模板列举在路线规划中更有效.
结论:
- 效率和逆合成知识对于成功的逆合成路线规划至关重要.
- 简单的模板列举应该被视为未来研究中一个有价值的基准.
- 这种有效的策略应该与复杂的模型相结合,以便在药物发现中实践计算机辅助合成规划.
相关概念视频
Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving
48
Mechanistic models play a crucial role in algorithms for numerical problem-solving, particularly in nonlinear mixed effects modeling (NMEM). These models aim to minimize specific objective functions by evaluating various parameter estimates, leading to the development of systematic algorithms. In some cases, linearization techniques approximate the model using linear equations.
In individual population analyses, different algorithms are employed, such as Cauchy's method, which uses a...
In individual population analyses, different algorithms are employed, such as Cauchy's method, which uses a...
48
Molecular Models
38.2K
Physical models representing molecular architectures of chemical compounds play essential roles in understanding chemistry. The use of molecular models makes it easier to visualize the structures and shapes of atoms and molecules.
38.2K
Rate-Determining Steps
32.2K
Relating Reaction Mechanisms
In a multistep reaction mechanism, one of the elementary steps progresses significantly slower than the others. This slowest step is called the rate-limiting step (or rate-determining step). A reaction cannot proceed faster than its slowest step, and hence, the rate-determining step limits the overall reaction rate.
The concept of rate-determining step can be understood from the analogy of a 4-lane freeway with a short-stretch of traffic-bottleneck caused due to...
In a multistep reaction mechanism, one of the elementary steps progresses significantly slower than the others. This slowest step is called the rate-limiting step (or rate-determining step). A reaction cannot proceed faster than its slowest step, and hence, the rate-determining step limits the overall reaction rate.
The concept of rate-determining step can be understood from the analogy of a 4-lane freeway with a short-stretch of traffic-bottleneck caused due to...
32.2K
Multi-Step Reactions
7.3K
Chemical reactions often occur in a stepwise fashion involving two or more distinct reactions taking place in a sequence. A balanced equation indicates the reacting species and the product species, but it reveals no details about how the reaction occurs at the molecular level. The reaction mechanism (or reaction path) provides details regarding the precise, step-by-step process by which a reaction occurs. Each of the steps in a reaction mechanism is called an elementary reaction. These...
7.3K
Step-Growth Polymerization: Overview
3.4K
Step-growth or condensation polymerization is a stepwise reaction of bi or multifunctional monomers to form long-chain polymers. As all the monomers are reactive, most of the monomers are consumed at the early stages of the reaction to form small chains of reactive oligomers, which then combine to form long polymer chains in the late stages. Hence, the reaction has to proceed for a long time to achieve high molecular weight polymers.
Many natural and synthetic polymers are produced by...
Many natural and synthetic polymers are produced by...
3.4K
Molecular Weight of Step-Growth Polymers
2.2K
Step growth polymerization involves bi or multifunctional monomers. Bifunctional monomers react to form linear step growth polymers, whereas multifunctional monomers react to form non-linear or branched polymers.
As the step-growth polymerization involves step-wise condensation of monomers, the molecular weight also builds up eventually. Consequently, high molecular weight polymers are obtained at the late stages of the polymerization, where 99% of monomers have been consumed.
The extent of the...
As the step-growth polymerization involves step-wise condensation of monomers, the molecular weight also builds up eventually. Consequently, high molecular weight polymers are obtained at the late stages of the polymerization, where 99% of monomers have been consumed.
The extent of the...
2.2K


