In this work, we will evaluate the power and type I error rate of FDR approach in the context of genome-wide association tests with closely spaced markers using the Genetic Analysis External links[edit] False Discovery Rate Analysis in R – Lists links with popular R packages Large-scale Simultaneous Inference – Syllabus, notes, and homework from Efron's course at Stanford. It is mainly useful when there are a fairly small number of multiple comparisons and you're looking for one or two that might be significant. Did Sputnik 1 have attitude control?

PMC170937. Resampling-Based Multiple Testing: Examples and Methods for P-Value Adjustment. Dietary variableP valueRank(i/m)Q Total calories <0.00110.010 Olive oil 0.00820.020 Whole milk 0.03930.030 White meat 0.04140.040 Proteins 0.04250.050 Nuts 0.06060.060 Cereals and pasta0.07470.070 White fish 0.20580.080 Butter 0.21290.090 Vegetables 0.216100.100 Skimmed milk In 1979, Holm proposed the Holm procedure,[6] a stepwise algorithm for controlling the FWER that is at least as powerful as the well-known Bonferroni adjustment.

Generated Sat, 15 Oct 2016 15:18:16 GMT by s_ac15 (squid/3.5.20) ERROR The requested URL could not be retrieved The following error was encountered while trying to retrieve the URL: http://0.0.0.9/ Connection The minP procedure generally provides weak control of FWER, and under certain conditions, also renders a strong control of FWER. The system returned: (22) Invalid argument The remote host or network may be down. Bibcode:2004math.....10072D.

Vioque, and M. If you use the Bonferroni correction, a P value would have to be less than 0.05/20000=0.0000025 to be significant. A P value of 0.05 means that there's a 5% chance of getting your observed result, if the null hypothesis were true. This led Benjamini and Hochberg to the idea that a similar error rate, rather than being merely a warning, can serve as a worthy goal to control.

A better way to evaluate a certain determinant Going to be away for 4 months, should we turn off the refrigerator or leave it on with water inside? Classification of multiple hypothesis tests[edit] Main article: Classification of multiple hypothesis tests The following table defines various errors committed when testing multiple null hypotheses. Large-Scale Inference. The cost, in time, effort and perhaps money, could be quite high if you based important conclusions on these false positives, and it would at least be embarrassing for you once

Not the answer you're looking for? Annals of Statistics. 29 (4): 1165–1188. Reiner, A., D. Linked 18 Comparing and contrasting, p-values, significance levels and type I error Related 4Frequentist properties of p-values in relation to type I error1Prove this theorem related with specification tests5Help in understanding

doi:10.1111/1467-9868.00346. ^ Sarkar, Sanat K. "Stepup procedures controlling generalized FWER and generalized FDR." The Annals of Statistics (2007): 2405-2420. ^ Sarkar, Sanat K., and Wenge Guo. "On a generalized false discovery hypothesis-testing statistical-significance p-value type-i-errors share|improve this question edited Jul 4 '14 at 6:07 asked Jul 4 '14 at 5:45 Student T 1,3221616 4 Fisher's $p$ value and the Type I Warning: The NCBI web site requires JavaScript to function. Bibcode:2006math......2311D.

Biometrika 73: 751-754. ⇐ Previous topic|Next topic ⇒ Table of Contents This page was last revised July 20, 2015. This stepwise algorithm sorts the p-values and sequentially rejects the hypotheses starting from the smallest p-values. Controlling procedures[edit] For a broader coverage related to this topic, see Multiple testing correction. Another possible reason is that Storey's FDR approach was originally proposed in the context of microarray data analyses where many null hypotheses were not true.

Bioinformatics 19: 368-375. The E(T) was estimated by the average number of detected true associations for each dataset. Biometrika. 69 (3): 493. Cyberpunk story: Black samurai, skateboarding courier, Mafia selling pizza and Sumerian goddess as a computer virus The mortgage company is trying to force us to make repairs after an insurance claim

It is therefore of importance to control the probability of having one or more false significant tests. Summing the test results over Hi will give us the following table and related random variables: Null hypothesis is true (H0) Alternative hypothesis is true (HA) Total Test is declared significant How to efficiently control the false positive rate, or type I error rate, when a large number of tests are conducted in a genome-wide study is a challenging problem.For multiple testing Just take a look at the beginning of the discussion that follows on the last page.

Maybe it's helpful to think of it like that: the p-value threshold is the probability of making false discoveries when there are no true discoveries to be make (or to put Controlling the false discovery rate: Benjamini–Hochberg procedure An alternative approach is to control the false discovery rate. My CEO wants permanent access to every employee's emails. Biometrika. 75 (2): 383.

Controlling the false discovery rate: a practical and powerful approach to multiple testing. How to do the tests Spreadsheet I have written a spreadsheet to do the Benjamini-Hochberg procedure on up to 1000 P values. MR1869245. ^ Storey, J. Resampling-based multiple testing for microarray data analysis.