Application of the Linux cluster for exhaustive window haplotype analysis using the FBAT and Unphased programs

Background: Genetic association studies have been used to map disease-causing genes. A newly introduced statistical method, called exhaustive haplotype association study, analyzes genetic information consisting of different numbers and combinations of DNA sequence variations along a chromosome. Such studies involve a large number of statistical calculations and subsequently high computing power. It is possible to develop parallel algorithms and codes to perform the calculations on a high performance computing (HPC) system. However, most existing commonlyused statistic packages for genetic studies are non-parallel versions. Alternatively, one may use the cutting-edge technology of grid computing and its packages to conduct non-parallel genetic statistical packages on a centralized HPC system or distributed computing systems. In this paper, we report the utilization of a queuing scheduler built on the Grid Engine and run on a Rocks Linux cluster for our genetic statistical studies. Resu...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Hiroyuki Mishima, Andrew C. Lidral, Jun Ni
• Keywords: BMCBI 2008, Genetic Association Studies, Genetic Statistical Packages, Rocks Linux Cluster