Gene and Chromatin Analysis Core

项目摘要/摘要-基因和染色质分析核心 基因和染色质分析核心提供技术和生物信息学基础设施 最佳地挖掘大量全基因组的基因表达和染色质数据，这些数据是从 PPG的工作。PPG研究人员在全基因组分析的几个方面处于领先地位，包括 将这些方法率先应用于大脑中特定类型的细胞，这带来了几个技术挑战。我们有 几种下一代测序方法的优化方法，包括RNA-SEQ，CHIP-SEQ，ATAC-SEQ 啮齿动物和人脑的SEQ、HIC和全基因组亚硫酸盐测序等，后者 提供了另一组独特的技术挑战。这些方法正越来越多地被用于 研究啮齿动物和人类特定大脑奖赏区域内的单个细胞类型。核心拥有 在分析所获得的高度复杂的数据集方面建立了专业知识，并将致力于进一步改进 可用的工具。我们PPG产生的所有全基因组数据都由这个核心进行分析。同时， Core与动物模型Core一起对已定义的动物模型进行常规的全基因组分析，因此 为个别项目中更具体和更复杂的措施提供了基础。事实上，每个人 该项目的重点是在啮齿动物成瘾模型和 人类物质使用障碍。此外，Core还试验了新的实验技术；我们的 能够在体内针对单一脑区和细胞类型内的单一基因进行单一染色质修饰， 从而为建立成瘾的转录机制提供了无与伦比的证据。通过 将分析工作和常规全基因组分析整合在一个集中的核心中，我们确保 严格控制数据，便于比较四个人的实验结果 项目。这种整合在财务上也是有意义的，因为我们集中并最大限度地有效利用 我们的专业知识。最后，核心与管理核心负责维护一个平台，以 在PPG的实验室之间以及与 科学界和广大公众。

PROJECT SUMMARY/ABSTRACT– GENE AND CHROMATIN ANALYSIS CORE The Gene and Chromatin Analysis Core provides the technical and bioinformatics infrastructure to optimally mine the large amount of genome-wide gene expression and chromatin data that are generated from the PPG’s work. PPG investigators lead the field in several aspects of genome-wide analyses, including pioneering these approaches to specific cell types in brain, which offers several technical challenges. We have optimized methods for several next generation sequencing approaches, including RNA-seq, ChIP-seq, ATAC- seq, HiC, and whole genome bisulfite sequencing, among others, for rodent and human brain, the latter offering an additional set of unique technical challenges. These approaches are being used increasingly to study individual cell types within a given brain reward region, in both rodent and human. The Core has established expertise in analyzing the highly complex datasets obtained, and will work on further improving the tools available. All of the genome-wide data generated by our PPG are analyzed by this Core. In parallel, the Core runs routine genome-wide assays on defined animal models, with the Animal Models Core, and thereby provides a foundation for the more specific and sophisticated measures in the individual Projects. Indeed, each Project focuses on genes that are among the most robustly regulated across rodent addiction models and human substance use disorders. As well, the Core pilots novel experimental technologies; an example is our ability to target single chromatin modifications to a single gene within a single brain region and cell type in vivo, thus providing an unparalleled level of proof to establish transcriptional mechanisms of addiction. By consolidating the analytical work and routine genome-wide analyses within a centralized Core, we ensure rigorous control over the data and facilitate comparisons of experimental findings across the four individual Projects. This consolidation also makes financial sense, since we concentrate and maximize efficient use of our expertise. Finally, the Core is responsible, with the Administrative Core, in maintaining a platform for sharing our genome-wide datasets and analytical tools across the PPG’s laboratories as well as with the scientific community and lay public at large.