{"title":"将稳健的双重机器学习模型应用于 omics 数据。","authors":"Xuqing Wang, Yahang Liu, Guoyou Qin, Yongfu Yu","doi":"10.1186/s12859-024-05975-4","DOIUrl":null,"url":null,"abstract":"<p><strong>Background: </strong>Recently, there has been a growing interest in combining causal inference with machine learning algorithms. Double machine learning model (DML), as an implementation of this combination, has received widespread attention for their expertise in estimating causal effects within high-dimensional complex data. However, the DML model is sensitive to the presence of outliers and heavy-tailed noise in the outcome variable. In this paper, we propose the robust double machine learning (RDML) model to achieve a robust estimation of causal effects when the distribution of the outcome is contaminated by outliers or exhibits symmetrically heavy-tailed characteristics.</p><p><strong>Results: </strong>In the modelling of RDML model, we employed median machine learning algorithms to achieve robust predictions for the treatment and outcome variables. Subsequently, we established a median regression model for the prediction residuals. These two steps ensure robust causal effect estimation. Simulation study show that the RDML model is comparable to the existing DML model when the data follow normal distribution, while the RDML model has obvious superiority when the data follow mixed normal distribution and t-distribution, which is manifested by having a smaller RMSE. Meanwhile, we also apply the RDML model to the deoxyribonucleic acid methylation dataset from the Alzheimer's disease (AD) neuroimaging initiative database with the aim of investigating the impact of Cerebrospinal Fluid Amyloid <math><mi>β</mi></math> 42 (CSF A <math><mi>β</mi></math> 42) on AD severity.</p><p><strong>Conclusion: </strong>These findings illustrate that the RDML model is capable of robustly estimating causal effect, even when the outcome distribution is affected by outliers or displays symmetrically heavy-tailed properties.</p>","PeriodicalId":8958,"journal":{"name":"BMC Bioinformatics","volume":"25 1","pages":"355"},"PeriodicalIF":2.9000,"publicationDate":"2024-11-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11566156/pdf/","citationCount":"0","resultStr":"{\"title\":\"Robust double machine learning model with application to omics data.\",\"authors\":\"Xuqing Wang, Yahang Liu, Guoyou Qin, Yongfu Yu\",\"doi\":\"10.1186/s12859-024-05975-4\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Background: </strong>Recently, there has been a growing interest in combining causal inference with machine learning algorithms. Double machine learning model (DML), as an implementation of this combination, has received widespread attention for their expertise in estimating causal effects within high-dimensional complex data. However, the DML model is sensitive to the presence of outliers and heavy-tailed noise in the outcome variable. In this paper, we propose the robust double machine learning (RDML) model to achieve a robust estimation of causal effects when the distribution of the outcome is contaminated by outliers or exhibits symmetrically heavy-tailed characteristics.</p><p><strong>Results: </strong>In the modelling of RDML model, we employed median machine learning algorithms to achieve robust predictions for the treatment and outcome variables. Subsequently, we established a median regression model for the prediction residuals. These two steps ensure robust causal effect estimation. Simulation study show that the RDML model is comparable to the existing DML model when the data follow normal distribution, while the RDML model has obvious superiority when the data follow mixed normal distribution and t-distribution, which is manifested by having a smaller RMSE. 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引用次数: 0
摘要
背景:近来,人们对将因果推断与机器学习算法相结合的兴趣日益浓厚。双机器学习模型(DML)作为这种组合的一种实现方式,因其在估计高维复杂数据中的因果效应方面的专长而受到广泛关注。然而,DML 模型对结果变量中存在的异常值和重尾噪声非常敏感。本文提出了稳健双机器学习(RDML)模型,以便在结果分布受到异常值污染或呈现对称重尾特征时,实现对因果效应的稳健估计:在 RDML 模型的建模过程中,我们采用了中值机器学习算法来实现对治疗变量和结果变量的稳健预测。随后,我们为预测残差建立了中值回归模型。这两个步骤确保了稳健的因果效应估计。仿真研究表明,当数据服从正态分布时,RDML 模型与现有的 DML 模型相当;而当数据服从正态分布和 t 分布混合时,RDML 模型具有明显的优越性,具体表现为 RMSE 更小。同时,我们还将 RDML 模型应用于阿尔茨海默病(AD)神经影像倡议数据库中的脱氧核糖核酸甲基化数据集,旨在研究脑脊液淀粉样蛋白 β 42(CSF A β 42)对 AD 严重程度的影响:这些研究结果表明,即使结果分布受异常值影响或呈现对称重尾特性,RDML 模型也能稳健地估计因果效应。
Robust double machine learning model with application to omics data.
Background: Recently, there has been a growing interest in combining causal inference with machine learning algorithms. Double machine learning model (DML), as an implementation of this combination, has received widespread attention for their expertise in estimating causal effects within high-dimensional complex data. However, the DML model is sensitive to the presence of outliers and heavy-tailed noise in the outcome variable. In this paper, we propose the robust double machine learning (RDML) model to achieve a robust estimation of causal effects when the distribution of the outcome is contaminated by outliers or exhibits symmetrically heavy-tailed characteristics.
Results: In the modelling of RDML model, we employed median machine learning algorithms to achieve robust predictions for the treatment and outcome variables. Subsequently, we established a median regression model for the prediction residuals. These two steps ensure robust causal effect estimation. Simulation study show that the RDML model is comparable to the existing DML model when the data follow normal distribution, while the RDML model has obvious superiority when the data follow mixed normal distribution and t-distribution, which is manifested by having a smaller RMSE. Meanwhile, we also apply the RDML model to the deoxyribonucleic acid methylation dataset from the Alzheimer's disease (AD) neuroimaging initiative database with the aim of investigating the impact of Cerebrospinal Fluid Amyloid 42 (CSF A 42) on AD severity.
Conclusion: These findings illustrate that the RDML model is capable of robustly estimating causal effect, even when the outcome distribution is affected by outliers or displays symmetrically heavy-tailed properties.
期刊介绍:
BMC Bioinformatics is an open access, peer-reviewed journal that considers articles on all aspects of the development, testing and novel application of computational and statistical methods for the modeling and analysis of all kinds of biological data, as well as other areas of computational biology.
BMC Bioinformatics is part of the BMC series which publishes subject-specific journals focused on the needs of individual research communities across all areas of biology and medicine. We offer an efficient, fair and friendly peer review service, and are committed to publishing all sound science, provided that there is some advance in knowledge presented by the work.