Estimating the proportion of true null hypotheses, with application to DNA microarray data |
| |
Authors: | Mette Langaas Bo Henry Lindqvist Egil Ferkingstad |
| |
Institution: | Norwegian University of Science and Technology, Trondheim, Norway; University of Oslo and Centre for Integrative Genetics, Aas, Norway |
| |
Abstract: | Summary. We consider the problem of estimating the proportion of true null hypotheses, π 0, in a multiple-hypothesis set-up. The tests are based on observed p -values. We first review published estimators based on the estimator that was suggested by Schweder and Spjøtvoll. Then we derive new estimators based on nonparametric maximum likelihood estimation of the p -value density, restricting to decreasing and convex decreasing densities. The estimators of π 0 are all derived under the assumption of independent test statistics. Their performance under dependence is investigated in a simulation study. We find that the estimators are relatively robust with respect to the assumption of independence and work well also for test statistics with moderate dependence. |
| |
Keywords: | Bioinformatics Decreasing and convex density Dependent test statistics Multiple testing Nonparametric maximum likelihood estimator p-value |
|
|