Analytical tools and current challenges in the modern era of neuroepigenomics

Maze, Ian; Shen, Li; Zhang, Bin; Garcia, Benjamin A.; Shao, Ning‐Yi; Mitchell, Amanda; Sun, HaoSheng; Akbarian, Schahram; Allis, C. David; Nestler, Eric J.

doi:10.1038/nn.3816

Cited by 91 publications

(71 citation statements)

References 146 publications

(149 reference statements)

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“…[58][59][60] It is still an open question that the deregulated DNA and RNA demethylation is a cause or a consequence of diseases. Future studies are needed to uncover the function of epigenetic modifications especially DNA demethylation, RNA methylation and demethylation in developmental diseases, which would greatly contribute to the development of personal and precise medicine.…”

Section: Discussionmentioning

confidence: 99%

An epigenetic view of developmental diseases: new targets, new therapies

Xie

Zang

et al. 2016

World J Pediatr

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Section: Discussionmentioning

confidence: 99%

An epigenetic view of developmental diseases: new targets, new therapies

Xie

Zang

et al. 2016

World J Pediatr

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“…Cell-type-specific molecular profiling requires the isolation of targeted cell populations from complex tissues (Maze et al, 2014). Manual sorting (Sugino et al, 2006) and laser capture microdissection (Emmert-Buck et al, 1996) are useful for isolating small numbers of cells but do not provide enough material for epigenomic studies.…”

Section: Introductionmentioning

confidence: 99%

Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain

Mukamel

Davis

et al. 2015

Neuron

669

914

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SUMMARY Neuronal diversity is essential for mammalian brain function but poses a challenge to molecular profiling. To address the need for tools that facilitate cell-type-specific epigenomic studies, we developed the first affinity purification approach to isolate nuclei from genetically defined cell types in a mammal. We combine this technique with next-generation sequencing to show that three subtypes of neocortical neurons have highly distinctive epigenomic landscapes. Over 200,000 regions differ in chromatin accessibility and DNA methylation signatures characteristic of gene regulatory regions. By footprinting and motif analyses, these regions are predicted to bind distinct cohorts of neuron subtype-specific transcription factors. Neuronal epigenomes reflect both past and present gene expression, with DNA hyper-methylation at developmentally critical genes appearing as a novel epigenomic signature in mature neurons. Taken together, our findings link the functional and transcriptional complexity of neurons to their underlying epigenomic diversity.

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“…18,19 Recent studies also suggest that epigenetic modifications might constitute a new template for psychiatric interventions. 20 …”

Section: Overview Of Mechanisms Of Epigenetic Regulationmentioning

confidence: 99%

Epigenetic Mechanisms of Serotonin Signaling

Holloway

González-Maeso

2015

ACS Chem. Neurosci.

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Histone modifications and DNA methylation represent central dynamic and reversible processes that regulate gene expression and contribute to cellular phenotypes. These epigenetic marks have been shown to play fundamental roles in a diverse set of signaling and behavioral outcomes. Serotonin is a monoamine that regulates numerous physiological responses including those in the central nervous system. The cardinal signal transduction mechanisms via serotonin and its receptors are well established, but fundamental questions regarding complex interactions between the serotonin system and heritable epigenetic modifications that exert control on gene function remain a topic of intense research and debate. This review focuses on recent advances and contributions to our understanding of epigenetic mechanisms of serotonin receptor-dependent signaling, with focus on psychiatric disorders such as schizophrenia and depression.

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Analytical tools and current challenges in the modern era of neuroepigenomics

Cited by 91 publications

References 146 publications

An epigenetic view of developmental diseases: new targets, new therapies

An epigenetic view of developmental diseases: new targets, new therapies

Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain

Epigenetic Mechanisms of Serotonin Signaling

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