Panel design and quality control results. (A,B) The process for candidate enhancer selection for Panel 1 (A) and Panel 2 (B). See “Results” for a complete description of candidate selection. (C) The experimental workflow. Sheared genomic DNA was hybridized to probes specific for the candidate enhancer regions. These regions were then cloned into the STARR-seq plasmid and transfected into phNPCs. (D,E) The fold change correlation between the two technical replicates for Panel 1 (D) and Panel 2 (E). Pearson's r2 values are included on the graphs. (F,G) Volcano plots representing the tested enhancer regions. Regions that had significant peaks as determined by STARRPeaker are in dark blue and nonsignificant regions are in light blue. (PFC) prefrontal cortex, (PEC) PsychENCODE Consortium, (BP) bipolar disorder, (SZ) schizophrenia, (GWAS) genome-wide association study, (phNPC) primary human neural progenitor cell, (PCW) postconception week, (FDR) false discovery rate, (FC) fold change.
