相关实验视频
Updated: Jul 6, 2025

12:31
In Vivo Modeling of the Morbid Human Genome using Danio rerio
Published on: August 24, 2013
20.7K
RediscMol:对生物特性中的分子生成模型进行基准测试
Gaoqi Weng1, Huifeng Zhao1, Dou Nie1
1Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, College of Pharmaceutical Sciences, Zhejiang UniversityHangzhou 310058, Zhejiang, China.
Journal of medicinal chemistry
|January 5, 2024
概括
深度学习模型可以生成新的分子. RediscMol基准显示,一些模型擅长重新发现已知的活性化合物,为药物设计提供了洞察力.
科学领域:
- 计算化学是一种计算化学.
- 药物发现 药物发现
- 机器学习是机器学习.
背景情况:
- 深度学习模型越来越多地用于生成具有特定属性的新分子.
- 目前对这些模型的评估指标是不够的,特别是对于生物应用.
- 需要强大的基准来评估在现实的药物设计背景下生成模型.
研究的目的:
- 为评估分子生成模型引入RediscMol基准.
- 使用新型指标评估八个代表性生成模型的性能.
- 为推进药物发现中的生成模型提供一个框架.
主要方法:
- 使用来自激酶和GPCR数据集的活性分子构建了RediscMol基准值.
- 引入了基于重新发现和相似性的模型评估指标.
- 评估了八种生成模型:CharRNN,VAE,Reinvent,AAE,ORGAN,RNNAttn,TransVAE和GraphAF. 这些模型包括:
主要成果:
- 绩效排名与以往基于标准指标的评估不同.
- CharRNN,VAE和Reinvent在复制已知的活性分子方面表现出卓越的能力.
- 尽管分布学习性能强,但RNNAttn,TransVAE和GraphAF在复制已知的活性物质方面存在局限性.
结论:
- 雷迪斯科摩尔基准提供了对生成模型更具生物相关性的评估.
- 具体的模型显示在重新发现已知的活性化合物方面具有不同的强度.
- 拟议的评估框架可以指导开发用于实际药物设计的生成模型.
相关概念视频
Evolutionary Relationships through Genome Comparisons
5.7K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.7K
Mechanistic Models: Compartment Models in Individual and Population Analysis
43
Mechanistic models are utilized in individual analysis using single-source data, but imperfections arise due to data collection errors, preventing perfect prediction of observed data. The mathematical equation involves known values (Xi), observed concentrations (Ci), measurement errors (εi), model parameters (ϕj), and the related function (ƒi) for i number of values. Different least-squares metrics quantify differences between predicted and observed values. The ordinary least...
43
Gene Families
8.8K
Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
8.8K
Mutagenicity and Carcinogenicity
1.3K
Mutagenicity and carcinogenicity refer to the ability of drugs to cause genetic defects and induce cancer, respectively. The International Agency for Research on Cancer (IARC) classifies agents into four groups based on their carcinogenic potential. Group 1 agents are known human carcinogens; group 2A agents are probably carcinogenic to humans; group 3 agents lack data to support their role in carcinogenesis; and group 4 includes agents for which data support that they are not likely to be...
1.3K

