Description Usage Format References Examples
Expression of reporter genes CFP and YFP in over 200 E. coli cells of two strains: D22 and M22. These values are displayed in a scatterplot in Elowitz et al (2002) Fig 3a.
1 | data("elowitz_data")
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The format is: List of 2 $ D22:'data.frame': 284 obs. of 2 variables: ..$ CFP: num [1:284] 3080 3082 2893 3053 2891 ... ..$ YFP: num [1:284] 2309 2394 2145 2340 2245 ... $ M22:'data.frame': 250 obs. of 2 variables: ..$ CFP: num [1:250] 2438 2316 2521 2646 2830 ... ..$ YFP: num [1:250] 1409 1391 1511 1460 1638 ...
Elowitz, M. B., A. J. Levine, E. D. Siggia, and P. S. Swain (2002) Stochastic gene expression in a single cell. Science, 297, 1183-1186.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 | data(elowitz_data)
# Normalize data such that they are
# comparable to Fig 3a in Elowitz et al. (2002).
# Normalized data have mean 1.
D22.cfp.norm <- (elowitz_data$D22[,1]-mean (elowitz_data$D22[,1]))/sd(elowitz_data$D22[,1])/8+1
D22.yfp.norm <- (elowitz_data$D22[,2]-mean (elowitz_data$D22[,2]))/sd(elowitz_data$D22[,2])/8+1
M22.cfp.norm <- (elowitz_data$M22[,1]-mean (elowitz_data$M22[,1]))/sd(elowitz_data$M22[,1])/12+1
M22.yfp.norm <- (elowitz_data$M22[,2]-mean (elowitz_data$M22[,2]))/sd(elowitz_data$M22[,2])/12+1
# Compute noise estimates.
# Since the mean is 1, estimates with and without
# the scaling are the same.
unlist (computeIntrinsicNoise (D22.cfp.norm, D22.yfp.norm))
unlist (computeExtrinsicNoise (D22.cfp.norm, D22.yfp.norm))
unlist (computeIntrinsicNoise (M22.cfp.norm, M22.yfp.norm))
unlist (computeExtrinsicNoise (M22.cfp.norm, M22.yfp.norm))
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