GSM2670725: GFPneg2; Danio rerio; RNA-Seq
RNA was extracted from tissue samples using the NucleoSpin® RNA kit (Macherey-Nagel) using the manufacturer’s protocol, quantified and quality-checked on a Nanodrop spectrophotometer. Both quantity and quality were assessed by using an Agilent 2100 Bioanalyzer. All samples used for RNA-seq had an RNA integrity number (RIN) > 8.0, and experimental design was such that GFP+ cells, or GFP- cells derived from the two retinas of a single fish constituted each RNA sample as a biological replicate. At least 5 ng of RNA was available per sample, and provided to the University of Idaho’s Institute for Bioinformatics and Evolutionary Studies (IBEST) Genomics Core for RNA amplification and the generation of cDNA. Quality and quantity of cDNA were verified by Bioanalyzer. All sample preparation was achieved with Ovation® RNA-Seq System V2 (NuGEN), and sequencing performed on an Illumina (San Diego, CA) MiSeq. Four replicates (from four different fish) were sequenced (Fig. 1A). Mapping percentages ranged from 97.0% to 97.4% per sample, and sequencing depth ranged from 2,781,516 to 3,480,515 reads per sample.
GEO Accession
GSM2670725