RNA was isolated from whole brain samples of Fmn2+/+ and Fmn2−/− mice, and assayed on Illumina Mouse-6 array slides (six samples per slide). We compared five samples from Fmn2−/− nulls, and five samples from Fmn2+/+ wildtype. Equal numbers of each genotypes were placed on each slide to avoid batch confounds. Microarray data were processed using both raw and rank invariant protocols provided by Illumina as part of the BeadStation software suite (www.illumina.com). We subsequently log-transformed expression values and stabilized the variance of each array. To identify genes with significant expression difference between the Fmn2−/− and Fmn2+/+ cases, we carried out two-tailed t-tests and applied a Bonferroni correction for multiple testing, and selected probes with a minimum adjusted p-value<0.05.
