Microarray experiments consisted on the comparison of 5 individuals of each temperature group (LT and HT) sampled during the process of sex differentiation at 170 dph.
The third microarray experiment consisted in gene expression profiling of mantle tissue in either male or female individual mussels across the four gonadal developmental stages (Stage I, November 2007; Stage II, January 2008; Stage III, February, 2008; Stage IV March 2008).
The second microarray experiment consisted in gene expression profiling of digestive gland tissue of male and female individual mussels across the four gonadal developmental stages (Stage I, November 2007; Stage II, January 2008; Stage III, February, 2008; Stage IV March 2008).
Whereas a simple microarray experiment consists of a single perturbation and readouts for tens of thousands of genes, this screen includes thousands of cDNA overexpression perturbations and a single readout.
Each microarray experiment consisted of six hybridizations according to the principles of dye-swap design [ 97] on tissues across three biological replicates of the experiments.
We first consider the situation where the complete data from a microarray experiment consists of three terms: the observed probe intensities, biological variables and adjustment variables.
We evaluated their approach using high-density oligonucleotide microarrays and Latin-square designed experiments consisting of 6 and 8 rRNA targets in 16 different artificial mixtures.
The output of microarray experiments typically consists of intensity measurements that are manipulated by scaling, background subtraction and other correction procedures, the details of which are often proprietary.
The microarray experiment therefore consisted of a total of 48 microarray slides.
An experiment consisting of 60 individuals from two equally-sized treatment groups was simulated, in a 44 one-color microarray setting.
