ArticleBioinformatics (Oxford, England)2010
A censored beta mixture model for the estimation of the proportion of non-differentially expressed genes.
Article in Bioinformatics (Oxford, England), 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- The network structural entropy for single-cell RNA sequencing data during skin aging.Briefings in bioinformatics · 2024Article
- Edge-based relative entropy as a sensitive indicator of critical transitions in biological systems.Journal of translational medicine · 2024Article
- A statistical approach for identifying primary substrates of ZSWIM8-mediated microRNA degradation in small-RNA sequencing data.BMC bioinformatics · 2023Article
- Bias-corrected estimators for proportion of true null hypotheses: application of adaptive FDR-controlling in segmented failure data.Journal of applied statistics · 2022Article
- A parametric model to estimate the proportion from true null using a distribution for p-values.Computational statistics & data analysis · 2017Article
- A statistical method for the conservative adjustment of false discovery rate (q-value).BMC bioinformatics · 2017Article
- Estimating the proportion of true null hypotheses when the statistics are discrete.Bioinformatics (Oxford, England) · 2015Article
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Authors and funding
2 authors.
Funding
Abstract
motivationThe proportion of non-differentially expressed genes (pi(0)) is an important quantity in microarray data analysis. Although many statistical methods have been proposed for its estimation, it is still necessary to develop more efficient methods.
methodsOur approach for improving pi(0) estimation is to modify an existing simple method by introducing artificial censoring to P-values. In a comprehensive simulation study and the applications to experimental datasets, we compare our method with eight existing estimation methods.
resultsThe simulation study confirms that our method can clearly improve the estimation performance. Compared with the existing methods, our method can generally provide a relatively accurate estimate with relatively small variance. Using experimental microarray datasets, we also demonstrate that our method can generally provide satisfactory estimates in practice. AVAILABILITY: The R code is freely available at http://home.gwu.edu/~ylai/research/CBpi0/.
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