Details on RNAseq and methylation data are published (De Jager et al., 2014 (link); Ng et al., 2017 ). Briefly, RNA from 168 individuals was extracted from DLPFC with the miRNeasy mini kit (Qiagen, Venlo, Netherlands) and the RNase free DNase Set (Qiagen, Vento, Netherlands). RNA concentration was quantified using Nanodrop (Thermo Fisher Scientific, Waltham, MA), and RNA quality was assessed using an Agilent Bioanalyzer. RNAseq was performed using Illumina HiSeq with 101 bp paired-end reads with an average depth of 90m reads. The trimmed reads were aligned to the reference genome using Bowtie and the expression FPKM values were estimated using RSEM; see supplement for normalization details.
DNA from 222 individuals was extracted from DLPFC using the Qiagen QIAamp DNA mini protocol. DNA methylation data were generated using Illumina Infinium HumanMethylation450k Bead Chip assay. Raw data were further processed using Methylation Module v1.8 from the Illumina Genome Studio software suite to generate a beta value for each cytosine guanine dinucleotide (CpG), see supplement for normalization details.
DNA from 222 individuals was extracted from DLPFC using the Qiagen QIAamp DNA mini protocol. DNA methylation data were generated using Illumina Infinium HumanMethylation450k Bead Chip assay. Raw data were further processed using Methylation Module v1.8 from the Illumina Genome Studio software suite to generate a beta value for each cytosine guanine dinucleotide (CpG), see supplement for normalization details.
