Affymetrix microarray analysis- Mouse postnatal day cochlea Bbs8 knockout vs Wildtype

RNA was extracted from two Bbs8+/+ and two Bbs8-/- P0 cochlea on separate days allowing for duplicate biological replications of each microarray experiment. RNA was extracted as described previously using the RNAqueous-Microkit (Ambion). Total RNA was further purified on an RNAeasy column (Qiagen) and the RNA quality was checked by an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA). Target labeling and hybridization to GeneChips were carried out in the NIDDK Microarray Core facility using the GeneChip Mouse 430_2 Array purchased from Affimetrixs. Samples from each genotype were pooled and split onto two chips each.