1. The iPlant Collaborative Community Cyberinfrastructure for Life Science Tools and Services Workshop …and Environments

2. genotype-phenotype relationship--consistent and additive? Environments—what and why most alleles are context-dependent! How do we find alleles that are only detectable in certain cases?

3. Mixed models are a flexible, powerful way to search for correlation between snp and trait Intercept Subpop membership and effect (fixed) Marker score and effect (fixed) Polygenic effect (random) u ~ MVN(0, K*sigma2_u) Random residual

4. Mixed models are a flexible, powerful way to search for correlation between snp and trait Intercept Subpop membership and effect (fixed) Marker score and effect (fixed) Polygenic effect (random) u ~ MVN(0, K*sigma2_u) Random residual Environment-specific SNP allele effect And add a term for the population-specific SNP allele x environment…. environment

6. The iPlant Collaborative is funded by a grant from the National Science Foundation Plant Cyberinfrastructure Program (#DBI-0735191).