RNA was isolated using the miRNAEasy kit (Qiagen, 217004) according to the manufacturer’s instructions. 100 ng of total RNA from each sample was profiled using single-molecule imaging on an nCounter System according to the manufacturer’s instructions by the Genomics Platform at the Broad Institute using a 352 probe custom PsychGene probe set consisting of genes to profile pluripotency, differentiation, WNT signaling, and candidate genes previously associated with either BD or schizophrenia (Sup. Table 7). Data were normalized using spiked in positive and negative control genes and the VSN algorithm38. Differentially expressed genes were identified using the Bioconductor module limma39.
