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HapMap, a database and analysis resource of human variation

Tutorial and training materials by OpenHelix

Learn to use HapMap, a database and analysis resource of human variation. The HapMap project identified and cataloged genetic variation in human beings in four populations with African, Asian, and European ancestry. This freely available database and variation browser contains much of the known variation of the Human genome and researchers can use the data to determine variations that affect health, disease, and individual responses to medications and environmental factors. Learn to use the genome browser associated with this project to view HapMap data, retrieve genotypes and find frequencies for genomic regions.
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You'll learn:

  • to find SNPs of interest with advanced searching
  • how to determine linkage disequilibrium between SNPs
  • how to find candidate tag SNPs to better design genotyping assays
  • where to download and how to use the HaploView software for deeper SNP analysis


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Recent BioMed Central research articles citing this resource

Li Kun et al., Genetic architecture of rind penetrometer resistance in two maize recombinant inbred line populations Genetics and crop biotechnology. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-152

Qiang Yu et al., Association study of 15q14 and 15q25 with high myopia in the Han Chinese population Complex traits and quantitative genetics. BMC Genetics (2014) doi:10.1186/1471-2156-15-51

O’Brien J Travis et al., Kinase insert domain receptor/vascular endothelial growth factor receptor 2 (KDR) genetic variation is associated with ovarian hyperstimulation syndrome. Reproductive Biology and Endocrinology (2014) doi:10.1186/1477-7827-12-36

Sharp R Aaron et al., Population substructure in Cache County, Utah: the Cache County study Selected articles from the 10th Annual Biotechnology and Bioinformatics Symposium (BIOT 2013) The 10th Annual Biotechnology and Bioinformatics Symposium (BIOT 2013). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-S7-S8

Voisin Sarah et al., EPAS1 gene variants are associated with sprint/power athletic performance in two cohorts of European athletes Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-382

More about the resource:

The International HapMap Project is a collaborative international effort of over 24 groups in six countries to identify and catalog human variation. The project has cataloged most of the probably 10 million SNPs estimated to occur in the Human Genome. The HapMap website includes a browser to view the SNP, haplotype, linkage disequilibrium and tag SNP data, an advanced search tool and software for deeper analysis. All data and tools are free and in the public domain.


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