Schizophrenia study with ChIP-Seq, RNA-Seq data on dbGaP (58 participants)

phs002487 — Epigenomes and Transcriptomes of Brain Samples of Schizophrenics and    Controls

<p>We examined the effects of antipsychotic medications on the cell-specific epigenomics and transcriptomics in the frontal cortex of schizophrenic subjects. We performed ChIP-seq (H3K4me3 and H3K27ac) and RNA-seq on neuronal and non-neuronal nuclei of postmortem frontal cortex samples from two cohorts of schizophrenics, either previously treated or not with antipsychotic medications, and control subjects individually matched by sex and age. In total, we tested 29 schizophrenics (15 untreated and 14 treated patients) and their matched control samples. Two replicates were produced on each brain sample for each assay. ChIP-seq data were generated using MOWChIP-seq (Zhu et al., PMID: <a href="https://pubmed.ncbi.nlm.nih.gov/31666743/">31666743</a>) and RNA-seq data were produced using the combination of SMART-seq2 (Picelli et al., PMID: <a href="https://pubmed.ncbi.nlm.nih.gov/24385147/">24385147</a>) and a Nextera XT DNA library preparation kit. The filename contains the information on the experimental group, the number of the sample within the group, the type of the brain nuclei, the epigenomic/transcriptomic data set (either H3K27ac or mRNA), and the number of replicate. For example, “SCZ-1-untreated-neuron-H3K4me3-R1” refers untreated schizophrenic sample #1, replicate 1 ChIP-seq data on H3K4me3.</p>