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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

Fang Juan et al., Association between Common Genetic Variants in the Opioid Pathway and Smoking Behaviors in Chinese Men. Behavioral and Brain Functions (2014) doi:10.1186/1744-9081-10-2

Mankad Pankaj et al., Population allele frequencies of disease associated SNPs in India: a paradigm shift from HapMap Proceedings of the International Conference on Human Genetics and 39th Annual Meeting of Indian Society of Human Genetics International Conference on Human Genetics and 39th Annual Meeting of the Indian Society of Human Genetics (ISHG). Molecular Cytogenetics (2014) doi:10.1186/1755-8166-7-S1-P105

Tsai Yishan et al., CHI3L1 polymorphisms associate with asthma in a Taiwanese population Genetic epidemiology and genetic associations. BMC Medical Genetics (2014) doi:10.1186/1471-2350-15-86

Levin M Albert et al., Performance of HLA allele prediction methods in African Americans for class II genes HLA-DRB1 DQB1 , and –DPB1 Statistical and computational genetics. BMC Genetics (2014) doi:10.1186/1471-2156-15-72

Dang Ngoc Tran et al., A replication study confirms the association of GWAS-identified SNPs at MICB and PLCE1 in Thai patients with dengue shock syndrome Genetic epidemiology and genetic associations. BMC Medical Genetics (2014) doi:10.1186/1471-2350-15-58

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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