This article is part of the supplement: Genetic Analysis Workshop 15: Gene Expression Analysis and Approaches to Detecting Multiple Functional Loci .

Proceedings

The multiplicity problem in linkage analysis of gene expression data – the power of differentiating cis- and trans-acting regulators

Baisong Huang^1,2 , Jagadish Rangrej¹ , Andrew D Paterson^1,2 and Lei Sun^1,2,3

¹  Research Institute, Hospital for Sick Children, 555 University Avenue, Toronto, Ontario, M5G 1X8, Canada

²  Department of Public Health Sciences, University of Toronto, 155 College Street, Toronto, Ontario, M5T 3M7, Canada

³  Department of Statistics, University of Toronto, 100 St. George Street, Toronto, Ontario, M53 3G3, Canada

author email corresponding author email

BMC Proceedings 2007, 1(Suppl 1):S142

Published:	18 December 2007

Abstract

In this report, we focused on the multiplicity issue in Problem 1 of Genetic Analysis Workshop 15. We investigated and compared the performance of the stratified false-discovery rate control method with the traditional aggregated approach, in an application to genome-wide linkage analyses of single-nucleotide polymorphism-to-gene expression data. We showed the importance of utilizing the available map information and demonstrated the power gained by conducting false-discovery rate control separately for cis and trans regulators under three different frameworks: fixed rejection region, fixed false-discovery rate, and fixed number of rejections.