Skip Navigation



Bioinformatics Advance Access published online on July 28, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn379
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow Supplementary Data
Right arrow All Versions of this Article:
24/20/2407    most recent
btn379v1
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Wojcik, J.
Right arrow Articles by Forner, K.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Wojcik, J.
Right arrow Articles by Forner, K.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

ExactFDR: Exact computation of false discovery rate estimate in case-control association studies

Jérôme Wojcik * and Karl Forner

Department of Bioinformatics, Merck Serono Geneva Research Center, 1202 Geneva, Switzerland

*To whom correspondence should be addressed. Dr. Jérôme Wojcik, E-mail: Jerome.wojcik{at}merckserono.net


  Abstract

Summary: Genome-wide association studies require accurate and fast statistical methods to identify relevant signals from the background noise generated by a huge number of simultaneously tested hypotheses. It is now commonly accepted that exact computations of association probability value (p-value) are preferred to chi-square and permutation-based approximations. Following the same princi-ple, the ExactFDR software package improves speed and accuracy of the permutation-based False Discovery Rate (FDR) estimation method by replacing the permutation-based estimation of the null distribution by a generalization of the algorithm used for computing individual exact p-values. It provides a quick and accurate non-conservative estimator of the proportion of false-positives in a given selection of markers, and is therefore an efficient and pragmatic tool for the analysis of genome-wide association studies.

Availability: A Java 1.6 (1.5-compatible) version is available on SourceForge: http://sourceforge.net/projects/exactfdr.

Contact: Jerome.wojcik{at}merckserono.net

Associate Editor: Dr. Alex Bateman

Received on February 26, 2008; revised on June 27, 2008; accepted on July 18, 2008

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.