**Describe the experimental design of the microarray data, including treatments, number of replicates (biological and/or technical), dye swaps.
 
**Describe the experimental design of the microarray data, including treatments, number of replicates (biological and/or technical), dye swaps.
 
***This article linked a recent resurgence of pertussis with an expansion of ''B. pertussis'' strains containing a novel allele for the pertussis toxin (ptx) promoter ptxP3 in place of the typical ptxP1 promoter. PtxP3 strains were noted to have better fitness due to higher expression rates of the pertussis toxin. In this experiment, a microarray analysis was conducting comparing several ptxP1 strains to several ptxP3 strains.
 
***This article linked a recent resurgence of pertussis with an expansion of ''B. pertussis'' strains containing a novel allele for the pertussis toxin (ptx) promoter ptxP3 in place of the typical ptxP1 promoter. PtxP3 strains were noted to have better fitness due to higher expression rates of the pertussis toxin. In this experiment, a microarray analysis was conducting comparing several ptxP1 strains to several ptxP3 strains.
−
#*Treatment Group: PtxP3 strains (n=5)
+
*Treatment Group: PtxP3 strains (n=5)
−
#*Control Group: PtxP1 strains (n=9)
+
*Control Group: PtxP1 strains (n=9)
 
*** Three or more biological replicates were conducted for each of the 14 "Bordetella pertussis" strains assessed in this paper, making for a total of 57 unique biological replicates. The data collected for all the replicates within each group was averaged and compared for the final microarray analysis.
 
*** Three or more biological replicates were conducted for each of the 14 "Bordetella pertussis" strains assessed in this paper, making for a total of 57 unique biological replicates. The data collected for all the replicates within each group was averaged and compared for the final microarray analysis.
 
#*Replicates, including strain names and the number of biological replicates per strain in parentheses:
 
#*Replicates, including strain names and the number of biological replicates per strain in parentheses:
 
#**2008-B3265 (4)
 
#**2008-B3265 (4)
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