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

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

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

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