Cite as: Cold Spring Harb. Protoc.; 2008; doi:10.1101/pdb.prot5024

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protocolProtocol

Generating HapMap Data Text Reports Using the Genome Browser

Albert Vernon Smith

This protocol was adapted from "Using the HapMap Web Site," Chapter 6, in Genetic Variation (eds. Weiner et al.). Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, USA, 2007.


INTRODUCTION

The primary goal of the International Haplotype Map Project has been to develop a haplotype map of the human genome that describes the common patterns of genetic variation, in order to accelerate the search for the genetic causes of human disease. Within the project, ~3.9 million distinct single-nucleotide polymorphisms (SNPs) have been genotyped in 270 individuals from four worldwide populations. The project data are available for unrestricted public use at the HapMap website. This site, which is the primary portal to genotype data produced by the project, offers bulk downloads of the data set, as well as interactive data browsing and analysis tools that are not available elsewhere. In many cases, a researcher will be interested in downloading HapMap data from a region of interest for local analysis. This protocol describes the direct download of genotype, frequency, tag-SNPs, and other reports from the project website, using the genome browser.


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A. V. Smith
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