Transcription profiling by array of embryonic chick retina treated with Hes5.3 siRNAs, Atoh7 siRNAs and non-targeting siRNAs.

The microarray analysis was designed to test the effects of Hes5.3 siRNAs, Atoh7 siRNAs and non-targeting siRNAs on gene expression at the periphery of the expanding Hes5.3 domain in embryonic chick retina. For this microarray we collected retina samples 16 hours after electroporation to complete our previous analysis performed on samples collected 36 hours after RNA interference treatment (Chiodini et al., 2013). HH24 chicken retinas were electroporated with either Hes5.3 siRNAs, Atoh7 siRNAs or non-targeting siRNAs and a Hes5.3-RFP reporter plasmid. Retina fragments encompassing the peripheral fluorescent domain were micro-dissected under a stereoscopic microscope 16 hours after electroporation. For each biological replicate, RNA was isolated from fragments dissected from four retinas. For each of the three experimental conditions, 4 biological replicates were tested.