In this post-HapMap era, the analysis of haplotypes appears as an important approach in genetic explorations of common human diseases. An "in press" paper in Genetic Epidemiology describes a new program for the analysis of haplotypes in the context of genetic association studies. Jo Knight and colleagues developed CLUMPHAP, a freely available program that presents some interesting advantages over existing programs, such as the feasibility of permutation testing and the possibility of carrying out haplotype cluster analyses. Recent papers show that these two features are important in the context of multiple testing correction and conservation of statistical power.
As an extension of the classical CLUMP program (described initially in a paper published in 1995, which has now more than 500 citations), this program is another important tool for those scientists working in the identification of novel genetic factors associated with common diseases. CLUMPHAP is easy to use and is complementary to other recently developed programs for genetic analysis, such as PLINK.
Author: Jo Knight
Social Genetic & Developmental Psychiatry
MRC Centre, Institute of Psychiatry, Kings College London, De Crespigny Park, London, UK
Reference: Knight J, Curtis D, Sham PC. CLUMPHAP: a simple tool for performing haplotype-based association analysis. Genet Epidemiol. 2008, in press.
Abstract available online.
The CLUMPHAP program and other software are available at Curtis software.
Message posted by: Diego Forero