Data from: Negative epistasis between beneficial mutations in an evolving bacterial population

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title Khan_etal_analysis
Downloaded 59 times
Description R script used to: estimate beneficial mutation effects and epistasis parameters, perform statistical tests and generate all figures presented in Khan et al. (2011), except figures 1 and 4. Takes as input the file: genotype_fitness.txt.
Download Khan_etal_analysis.R (40.64 Kb)
Details View File Details
Title Khan_etal_Fig1
Downloaded 45 times
Description R script to generate figure 1 of Khan et al. (2011). Takes as input the file: genotype_fitness.txt.
Download Khan_etal_Fig1.R (3.818 Kb)
Details View File Details
Title Khan_etal_Fig4
Downloaded 54 times
Description R script to generate figure 4 of Khan et al. (2011). Takes as input the file: genotype_fitness.txt.
Download Khan_etal_Fig4.R (25.66 Kb)
Details View File Details
Title genotype_fitness
Downloaded 62 times
Description Text file containing all replicate fitness measurements of each constructed genotype. Includes columns: strain, strain number; genotype, beneficial mutations present where r = rbs, t = topA, s = spoT, g = glmUS and p = pykF; mutations, number of beneficial mutations in the genotype; w, fitness estimate; block, experimental block; Plate, physical container used for the competition. This file is the input file for all analyses presented in Khan et al. (2011) Negative epistasis between beneficial mutations in an evolving bacterial population.
Download genotype_fitness.txt (19.56 Kb)
Details View File Details
Title raw_competition_data
Downloaded 59 times
Description Text file containing raw data from all competition experiments. All competitions were performed over 2 transfer cycles. Fitness values from this file are summarized in 'genotype_fitness.txt', which is the input file for all analyses presented in Khan et al. (2011) Negative epistasis between beneficial mutations in an evolving bacterial population.
Download raw_competition_data.txt (54.12 Kb)
Details View File Details

When using this data, please cite the original publication:

Khan AI, Dinh DM, Schneider D, Lenski RE, Cooper TF (2011) Negative epistasis between beneficial mutations in an evolving bacterial population. Science 332(6034): 1193-1196. http://dx.doi.org/10.1126/science.1203801

Additionally, please cite the Dryad data package:

Khan AI, Dinh DM, Schneider D, Lenski RE, Cooper TF (2011) Data from: Negative epistasis between beneficial mutations in an evolving bacterial population. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.5rv40
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: