ArticleBiological psychiatry2017
Practical Guidelines for High-Resolution Epigenomic Profiling of Nucleosomal Histones in Postmortem Human Brain Tissue.
Article in Biological psychiatry, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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37 citing papers in PubMed, 58 citations in OpenAlex.
- Epigenetic Regulation of Modulatory Neurotransmitter System Integrity in the Aging Brain: A Scoping Review Across the Lifespan.Life (Basel, Switzerland) · 2026Review
- Single-cell map of the female brain across reproductive transitions.bioRxiv : the preprint server for biology · 2026Article
- Optimised fluorescence-activated nuclei sorting for epigenomic analysis of cortical cell types.PloS one · 2026Article
- Egr1 is a sex-dependent regulator of neuronal chromatin, structural plasticity, and behaviour.Nature communications · 2025Article
- Article
- Single chromatin fiber profiling and nucleosome position mapping in the human brain.Cell reports methods · 2024Article
- Opposite and Differently Altered Postmortem Changes in H3 and H3K9me3 Patterns in the Rat Frontal Cortex and Hippocampus.Epigenomes · 2024Article
- Early-life stress and ovarian hormones alter transcriptional regulation in the nucleus accumbens resulting in sex-specific responses to cocaine.Cell reports · 2023Article
- Droplet-based bisulfite sequencing for high-throughput profiling of single-cell DNA methylomes.Nature communications · 2023Article
- Droplet-based bisulfite sequencing for high-throughput profiling of single-cell DNA methylomes.bioRxiv : the preprint server for biology · 2023Article
- HIV integration in the human brain is linked to microglial activation and 3D genome remodeling.Molecular cell · 2022Article
- High-resolution transcriptomics informs glial pathology in human temporal lobe epilepsy.Acta neuropathologica communications · 2022Article
- The rearing environment persistently modulates mouse phenotypes from the molecular to the behavioural level.PLoS biology · 2022Article
- Targeting histone demethylase LSD1 for treatment of deficits in autism mouse models.Molecular psychiatry · 2022Article
- Sex-specific multi-level 3D genome dynamics in the mouse brain.Nature communications · 2022Article
- Chromatin domain alterations linked to 3D genome organization in a large cohort of schizophrenia and bipolar disorder brains.Nature neuroscience · 2022Article
- Differential H3K9me2 heterochromatin levels and concordant mRNA expression in postmortem brain tissue of individuals with schizophrenia, bipolar, and controls.Frontiers in psychiatry · 2022Article
- Histone deacetylase 9 promotes endothelial-mesenchymal transition and an unfavorable atherosclerotic plaque phenotype.The Journal of clinical investigation · 2021Article
- Neuronal and glial 3D chromatin architecture informs the cellular etiology of brain disorders.Nature communications · 2021Article
- Parsing the Functional Impact of Noncoding Genetic Variants in the Brain Epigenome.Biological psychiatry · 2021Review
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21 authors at 4 institutions in 1 country.
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Abstract
backgroundThe nervous system may include more than 100 residue-specific posttranslational modifications of histones forming the nucleosome core that are often regulated in cell-type-specific manner. On a genome-wide scale, some of the histone posttranslational modification landscapes show significant overlap with the genetic risk architecture for several psychiatric disorders, fueling PsychENCODE and other large-scale efforts to comprehensively map neuronal and nonneuronal epigenomes in hundreds of specimens. However, practical guidelines for efficient generation of histone chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) datasets from postmortem brains are needed.
methodsProtocols and quality controls are given for the following: 1) extraction, purification, and NeuN neuronal marker immunotagging of nuclei from adult human cerebral cortex; 2) fluorescence-activated nuclei sorting; 3) preparation of chromatin by micrococcal nuclease digest; 4) ChIP for open chromatin-associated histone methylation and acetylation; and 5) generation and sequencing of ChIP-seq libraries.
resultsWe present a ChIP-seq pipeline for epigenome mapping in the neuronal and nonneuronal nuclei from the postmortem brain. This includes a stepwise system of quality controls and user-friendly data presentation platforms.
conclusionsOur practical guidelines will be useful for projects aimed at histone posttranslational modification mapping in chromatin extracted from hundreds of postmortem brain samples in cell-type-specific manner.
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