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SCALEs: multiscale analysis of library enrichment.

Publication ,  Journal Article
Lynch, MD; Warnecke, T; Gill, RT
Published in: Nature methods
January 2007

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.

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Published In

Nature methods

DOI

EISSN

1548-7105

ISSN

1548-7091

Publication Date

January 2007

Volume

4

Issue

1

Start / End Page

87 / 93

Related Subject Headings

  • Time Factors
  • Plasmids
  • Phenotype
  • Open Reading Frames
  • Oligonucleotide Array Sequence Analysis
  • Models, Genetic
  • Genomics
  • Genomic Library
  • Gene Dosage
  • Escherichia coli
 

Citation

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Lynch, M. D., Warnecke, T., & Gill, R. T. (2007). SCALEs: multiscale analysis of library enrichment. Nature Methods, 4(1), 87–93. https://doi.org/10.1038/nmeth946
Lynch, Michael D., Tanya Warnecke, and Ryan T. Gill. “SCALEs: multiscale analysis of library enrichment.Nature Methods 4, no. 1 (January 2007): 87–93. https://doi.org/10.1038/nmeth946.
Lynch MD, Warnecke T, Gill RT. SCALEs: multiscale analysis of library enrichment. Nature methods. 2007 Jan;4(1):87–93.
Lynch, Michael D., et al. “SCALEs: multiscale analysis of library enrichment.Nature Methods, vol. 4, no. 1, Jan. 2007, pp. 87–93. Epmc, doi:10.1038/nmeth946.
Lynch MD, Warnecke T, Gill RT. SCALEs: multiscale analysis of library enrichment. Nature methods. 2007 Jan;4(1):87–93.

Published In

Nature methods

DOI

EISSN

1548-7105

ISSN

1548-7091

Publication Date

January 2007

Volume

4

Issue

1

Start / End Page

87 / 93

Related Subject Headings

  • Time Factors
  • Plasmids
  • Phenotype
  • Open Reading Frames
  • Oligonucleotide Array Sequence Analysis
  • Models, Genetic
  • Genomics
  • Genomic Library
  • Gene Dosage
  • Escherichia coli