Journal Articles

1. Lynch, MD; Warnecke, T; Gill, RT, SCALEs: multiscale analysis of library enrichment., Nature Methods, vol. 4 no. 1 (January, 2007), pp. 87-93 [doi] .
   (last updated on 2022/11/05)

   Abstract:
   We report a genome-wide, multiscale approach to simultaneously measure the effect that the increased copy of each gene and/or operon has on a desired trait or phenotype. The method involves (i) growth selections on a mixture of several different plasmid-based genomic libraries of defined insert sizes or SCALEs, (ii) microarray studies of enriched plasmid DNA, and a (iii) mathematical multiscale analysis that precisely identifies the relevant genetic elements. This approach allows for identification of all single open reading frames and larger multigene fragments within a genomic library that alter the expression of a given phenotype. We have demonstrated this method in Escherichia coli by monitoring, in parallel, a population of >10(6) genomic library clones of different insert sizes, throughout continuous selections over a period of 100 generations.