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Exploring Mouse Genome Phenotypic Variations via Single Nucleotide Polymorphisms

This study analyzes phenotypic variations in the mouse genome caused by single nucleotide polymorphisms (SNPs). SNPs are important in pharmaceuticals and can affect disease responses. With approximately 8.27 million SNPs found in classical mouse strains, the research aims to associate SNPs with phenotypic differences in mice, whether in protein coding, noncoding, or intergenic regions. New algorithms will be developed for this purpose, addressing a larger scale compared to previous mapping efforts of ~140,000 SNPs. The methodology involves organizing SNP data into an online database using Ruby on Rails with a MySQL database to create a web server, with assistance from graduate student Emrah Kostem.

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Exploring Mouse Genome Phenotypic Variations via Single Nucleotide Polymorphisms

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  1. Analysis of Phenotypic Variations in the Mouse Genome Caused by Single Nucleotide Polymorphisms Corey Harada Advisor: Eleazar Eskin

  2. Statement of Problem • Single Nucleotide Polymorphism (SNP) • Mutation of a single nucleotide in a strand of DNA. • Important in pharmaceuticals; affect how things respond to disease. • ~8.27 million SNPs found in classical mouse strains. • We know the locations of the SNPs on the mouse genome, but not what they do.

  3. Goals • Associate SNPs with phenotypic differences in mice. • SNPs in protein coding regions, noncoding regions, or intergenic region. • Develop new algorithms to accomplish the above goal • Difference in scale: previously, only ~140,000 SNPs had been mapped.

  4. Methodology • Organize the SNP data into an online database. • Use Ruby on Rails with MySQL database to construct webserver. • Assisted by graduate student Emrah Kostem.

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