T.S. Gunasekera, L.N. Csonka, and O. Paliy

Genome-wide transcriptional responses of Escherichia coli K12 to heat and osmotic stresses (2008) J. Bacteriology 190 (10), 3712-20.

Full text (pdf)

Figure 1 - high resolution

Figure 2 - high resolution

Supplementary material:

(unless othewise stated, all numbers represent log2-transformed fold change values between two conditions)

• Complete dataset of 15 pair-wise comparisons (tab-delimited text):
  
  
  • K-means clustering of the complete dataset (centroid view; expression view)
    
    
    • Gene contents of individual clusters chosen for detailed analysis (tab-delimited text: CL2, CL4, CL6, CL11, CL14, CL15)
  • PCA analysis of the complete dataset (X-Y plane; X-Z plane), colors correspond to K-means cluster designations
• Genes regulated by alternative sigma factors:
  
  
  
  • Complete gene list (tab-delimited text)
  
  
  • Heat, osmotic, and GB response (colored image)
  
  
  • K-means clustering (expression view)
• Comparison of stress vs shock response:
  
  
  • List of genes identified by Weber et al. as osmotic-shock responsive
  
  
  • List of genes identified by Richmond et al. as heat-shock responsive (numbers represent fold-change values)
• Glycine betaine responsive gene lists:
  
  
  • GB up-regulated (tab-delimited text)
  
  
  • GB down-regulated (tab-delimited text)
• Oxidative stress genes:
  
  
  • Gene list with heat, osmotic, and dual stress responses