BOSTON, June 30, 2006 — Mark Daly, Ph.D., and his team at the Broad Institute have developed a new software program, called Haploview, for analyzing linkage disequilibrium and haplotype patterns in genotype data sets comprising up to tens of thousands of SNPs in thousands of individuals. The scientists are now using the program with new primary data analysis algorithms like BRLMM to analyze Affymetrix 500K Array data in collaborative studies of complex diseases, including autoimmune diseases like multiple sclerosis and lupus, type 2 diabetes, and neuropsychiatric diseases such as bipolar disorder and autism.

Informatics has been one of the primary bottlenecks for most scientists trying to analyze whole-genome association data, especially in context of the enormous amount of publicly available HapMap data. Daly has developed numerous analytical tools to help researchers find and understand patterns in all types of data. His lab’s Haploview software allows researchers worldwide to access, visualize, and interpret data made available through the Human Genome Project. The combination of Haploview software, Affymetrix GeneChip Mapping 500K Array set, and new robust algorithms such as BRLMM, allow scientists to generate accurate and reliable genotype calls for performing paradigm large-scale, whole-genome association studies.

Topics discussed during the interview include:

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