Neural Progenitor Cell Profiling

RNA isolation and microarray analysis was done as described [20 (link), 24 (link)]. Briefly, the neural aggregates at D10 for the formation of rosettes and at D15 (5 days after re-plating the rosette clusters for the expansion of neural precursor cells) were used for total RNA isolation by using RNeasy mini kit (Qiagen, Valencia, CA). RNA purity and concentration was determined by NanoDrop, ND-1000 spectrophotometer (Thermo Scientific, Indianapolis, IN) and microfluidics-based platform 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). Samples in biological duplicate were hybridized to Affymetrix Human Genome Plus 2.0 (Cat. No. 900469). Standard quality control metrics recommended by Affymetrix including image quality, signal distribution and pair wise scatter plots were used for all arrays. Mas5.CHP files were generated for each array by MAS 5.0 (Affymetrix, Santa Clara, CA) and combined to a final RESULTS.MAS5.TXT file [20 (link), 24 (link)].