文章基本信息

标题：Machine learning for multi-omics data integration in cancer
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作者：Zhaoxiang Cai ; Rebecca C. Poulos ; Jia Liu 等
期刊名称：iScience
印刷版ISSN：2589-0042
出版年度：2022
卷号：25
期号：2
页码：1-18
DOI：10.1016/j.isci.2022.103798
语种：English
出版社：Elsevier
摘要：SummaryMulti-omics data analysis is an important aspect of cancer molecular biology studies and has led to ground-breaking discoveries. Many efforts have been made to develop machine learning methods that automatically integrate omics data. Here, we review machine learning tools categorized as either general-purpose or task-specific, covering both supervised and unsupervised learning for integrative analysis of multi-omics data. We benchmark the performance of five machine learning approaches using data from the Cancer Cell Line Encyclopedia, reporting accuracy on cancer type classification and mean absolute error on drug response prediction, and evaluating runtime efficiency. This review provides recommendations to researchers regarding suitable machine learning method selection for their specific applications. It should also promote the development of novel machine learning methodologies for data integration, which will be essential for drug discovery, clinical trial design, and personalized treatments.Graphical abstractDisplay OmittedHighlights•Featuring a balance of both biological and technical content•Categorizing the reviewed tools into general purpose and task-specific•Performing an independent benchmarking analysis using a publicly available datasetMachine learning; Omics; Systems biology