Haplotype association mapping in mice

Methods Mol Biol. 2009;573:213-22. doi: 10.1007/978-1-60761-247-6_12.


Haplotype Association Mapping (HAM) is a novel phenotype-driven approach to identify genetic loci and was originally developed for mice. This method, which is similar to Genome-Wide Association (GWA) studies in humans, looks for associations between the phenotype and the haplotypes of mouse inbred strains, treating inbred strains as individuals. Although this approach is still in development, we review the current literature, present the different methods and applications that are in use, and provide a glimpse of what is to come in the near future.

Publication types

  • Review

MeSH terms

  • Animals
  • Chromosome Mapping / methods*
  • Genetic Markers / genetics
  • Genome-Wide Association Study / methods*
  • Haplotypes*
  • Markov Chains
  • Mice / genetics*
  • Mice, Inbred Strains / genetics
  • Models, Genetic
  • Polymorphism, Single Nucleotide / physiology


  • Genetic Markers