Differential Expressed Genes (DEGs)  
In DEGs, the simply fold search and limma model are provided. User can select interesting method to view results.
 
  1. Analyzing by DEseq R package  
     
   
  Conditional pair selection:  
 
    • Sulfur deplete
      • wild type vs. SNRK2.1 mutant (control)
      • wild type vs. SNRK2.1 mutant (treatment)
      • wild type (control vs. treatment)
      • SNRK2.1 mutant (control vs. treatment)
    • Nitrogen deprivation
      • control vs. treatment
    • Revised trace element recipe
      • control vs. treatment
    • CO2 concentration
      • wild type vs. cia5 mutant (very low co2 concentration)
      • wild type vs. cia5 mutant (low co2 concentration)
      • wild type vs. cia5 mutant (high co2 concentration)
      • wild type (very low co2 concentration vs. high co2 concentration)
      • cia5 mutant (very low co2 concentration vs. high co2 concentration)
    • Oxidative stress
      • wild type vs. mutant (singlet oxygen-mediated stress)
      • control vs. treatment (hydrogen peroxide stress)
    • Fe deprivation
      • TAP media
        • control vs. treatment (Fe repletion vs. Fe deficient)
        • control vs. treatment (Fe repletion vs. Fe limitation)
      • Minimal media
        • control vs. treatment (Fe repletion vs. Fe deficient)
        • control vs. treatment (Fe repletion vs. Fe limitation)

 
   
   
   
2. Fold change search
By comparing two different conditions and setting expression folds range, user can know genes and folds distribution of expression level.
 
First condition (numerator)


Second condition(denominator)