KMS Of Academy of mathematics and systems sciences, CAS
| Null-free False Discovery Rate Control Using Decoy Permutations | |
He, Kun1,3; Li, Meng-jie2,3; Fu, Yan2,3 ; Gong, Fu-zhou2,3; Sun, Xiao-ming1,3
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| 2022-04-01 | |
| Source Publication | ACTA MATHEMATICAE APPLICATAE SINICA-ENGLISH SERIES
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| ISSN | 0168-9673 |
| Volume | 38Issue:2Pages:235-253 |
| Abstract | The traditional approaches to false discovery rate (FDR) control in multiple hypothesis testing are usually based on the null distribution of a test statistic. However, all types of null distributions, including the theoretical, permutation-based and empirical ones, have some inherent drawbacks. For example, the theoretical null might fail because of improper assumptions on the sample distribution. Here, we propose a null distribution-free approach to FDR control for multiple hypothesis testing in the case-control study. This approach, named target-decoy procedure, simply builds on the ordering of tests by some statistic or score, the null distribution of which is not required to be known. Competitive decoy tests are constructed from permutations of original samples and are used to estimate the false target discoveries. We prove that this approach controls the FDR when the score function is symmetric and the scores are independent between different tests. Simulation demonstrates that it is more stable and powerful than two popular traditional approaches, even in the existence of dependency. Evaluation is also made on two real datasets, including an arabidopsis genomics dataset and a COVID-19 proteomics dataset. |
| Keyword | multiple testing false discovery rate null distribution-free p-value-free decoy permutations knockoff filter |
| DOI | 10.1007/s10255-022-1077-5 |
| Indexed By | SCI |
| Language | 英语 |
| Funding Project | National Key R&D Program of China[2018YFB0704304] ; National Natural Science Foundation of China[32070668] ; National Natural Science Foundation of China[62002231] ; National Natural Science Foundation of China[61832003] ; National Natural Science Foundation of China[61433014] ; K.C. Wong Education Foundation |
| WOS Research Area | Mathematics |
| WOS Subject | Mathematics, Applied |
| WOS ID | WOS:000781349200001 |
| Publisher | SPRINGER HEIDELBERG |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.amss.ac.cn/handle/2S8OKBNM/60341 |
| Collection | 应用数学研究所 |
| Corresponding Author | Fu, Yan |
| Affiliation | 1.Chinese Acad Sci, Inst Comp Technol, Beijing 100190, Peoples R China 2.Chinese Acad Sci, Acad Math & Syst Sci, RCSDS, CEMS,NCMIS, Beijing 100190, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China |
| Recommended Citation GB/T 7714 | He, Kun,Li, Meng-jie,Fu, Yan,et al. Null-free False Discovery Rate Control Using Decoy Permutations[J]. ACTA MATHEMATICAE APPLICATAE SINICA-ENGLISH SERIES,2022,38(2):235-253. |
| APA | He, Kun,Li, Meng-jie,Fu, Yan,Gong, Fu-zhou,&Sun, Xiao-ming.(2022).Null-free False Discovery Rate Control Using Decoy Permutations.ACTA MATHEMATICAE APPLICATAE SINICA-ENGLISH SERIES,38(2),235-253. |
| MLA | He, Kun,et al."Null-free False Discovery Rate Control Using Decoy Permutations".ACTA MATHEMATICAE APPLICATAE SINICA-ENGLISH SERIES 38.2(2022):235-253. |
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