Epigenetics

服务概述：表观遗传学核心提供全基因组DNA甲基化，组蛋白修饰和染色质免疫沉淀（ChIP）服务，沿着靶向基因区域分析和验证，以支持UCLA IDDRC内的广泛项目。根据用户的需要，核心提供培训和分发与核心服务有关的信息和协议。数据分析由Core B1、Neurogenomics和Bioinformatics Core在Geschwind博士的指导下协调。 B.人员配置 中心主任为孙毅博士。她在神经干细胞、人胚胎干细胞和诱导多能干细胞（IPS）的表观遗传学分析方面拥有丰富的经验。她在必要时提供表观遗传分析的培训和指导。一位助理研究员，Dr. ZeroGe，是表观遗传学核心的日常主管。她在内核的表观遗传分析的各个方面都有相当丰富的经验，并且在运行内核特定的仪器方面也有丰富的经验。孙博士把5%的时间用于指挥核心。她将30%的时间投入到核心活动中，并要求30%的工资。 C.资源 表观遗传学核心位于NRB的5楼（555室），作为Sun实验室的一部分，Sequenom MassArray设备与位于贡达（Goldschmied）神经科学和遗传学研究中心的南加州基因分型联盟共享。核心位于几个神经科学研究中心（例如，贡达，麦克唐纳研究实验室（MRL）和塞梅尔神经科学和人类行为研究所）。Core具有以下用于各种基因组和表观基因组分析的专用硬件和软件（即，用于转录因子和组蛋白修饰的全基因组位置分析的ChIP芯片，用于DNA甲基化分析的MeDIP芯片，用于全基因组基因表达分析的全基因组拷贝数变异分析的阵列CGH，以及用于基因组富集的序列捕获）：Roche/NimbleGen杂交系统（4-bay型号）、NimbleScan软件（版本2.5）和运行64位Windows操作系统的专用计算机（具有8-GB RAM）。所有样品制备都在核心的NRB空间进行。Sequenom MassARRAY位于贡达大楼内，用于运行反应。随后，在核心内的专用工作站进行数据分析。该工作站每周至少留出20小时供会员使用，IDDRC会员在必要时可以使用该工作站进行额外的数据分析。工作站装有适当的软件，用于分析通过核心收集的数据。此外，核心可以访问核心B1中Geschwind博士工作站中的软件（例如，商业程序，如Imagene和GeneSpring，以及共享软件，如Bio-Conductor，其被集成到Dr. Geschwind实验室和IDDRC神经基因组学和生物信息学核心B1中）。两个核心之间的相互作用产生了一个环境，在这个环境中，IDDRC成员可以利用核心人员的专业知识进行标准但复杂的表观遗传学、基因组学和统计学分析。此外，从Core获得的数据存储方式使IDDRC用户能够在不同平台上共享数据并执行分析

Overview of services: The Epigenetics Core provides genome-wide DNA methylation, histone modification, and chromatin immunoprecipitation (ChIP) services, along with targeted gene region analysis and validation, to support wide range of projects within the UCLA IDDRC. Depending on the need of the users, the Core provides training and distributes information and protocols related to Core services. Data analysis is coordinated by the services of Core B1, Neurogenomics and Bioinformatics Core, under the direction of Dr. Geschwind. b. Staffing The director of the Core is Dr. Yi Sun. She has extensive experience on epigenetic analysis of neural stem cells, human embryonic stem cells and induced pluripotent stem (IPS) cells. She provides training and instructions in epigenetic analyses when necessary. An Assistant Researcher, Dr. Weihong Ge, is the day-today supervisor of the Epigenetics Core. She has considerable experience in all aspects of epigenetic analyses of the Core, as well as in running instrumentations specific to the Core. Dr. Sun devotes 5% of her time for directing the Core. Weihong Ge devotes 30% of her time towards Core activities and 30% of her salary is requested. c. Resources The Epigenetics Core is located in the 5th floor of the NRB (Room 555) as part of the Sun laboratory, and the Sequenom MassArray equipment is shared with the Southern California Genotyping Consortium located in Gonda (Goldschmied) Neuroscience and Genetics Research Center. The Core is centrally located between several neuroscience research centers (e.g., Gonda, MacDonald Research Laboratories (MRL) and Semel Institute for Neuroscience and Human Behavior). The Core has the following dedicated hardware and software for various genomic and epigenomic analyses (i.e., ChlP-chip for genome-wide location analysis of transcription factors and histone modifications, MeDIP-chip for DNA methylation profiling, whole genome gene expression profiling, array CGH for whole genome copy number variation profiling, and sequence capture for genome enrichment) in the NRB 5th floor space: Roche/NimbleGen hybridization system (4-bay model), NimbleScan software (version 2.5) and a dedicated computer running 64-bit Windows OS (with 8-GB RAM). All the sample preparations take place in the Core's NRB space. The Sequenom MassARRAY is located in the Gonda building and is used for running the reactions. Subsequently, data analysis is performed at the dedicated workstation within the Core. The workstation is set aside for at least 20 hours per week for member use, and IDDRC members have access to the workstation for additional data analysis when necessary. The workstation is loaded with appropriate software for the analysis of collected data through the Core. In addition, the Core has access to software in Dr. Geschwind's workstation in Core B1 (e.g., commercial programs such as Imagene and GeneSpring, and shareware such as Bio-Conductor, which are integrated into Dr. Geschwind laboratory and the IDDRC Neurogenomics and Bioinformatics Core B1). The interplay between the two Cores generate an environment in which standard, yet sophisticated epigenetic, genomic and statistical analyses can be performed by IDDRC members with the expertise of the Core personnel. Furthermore, the data obtained from the Core are stored in a way that it enables IDDRC users to share their data and perform analyses across different platforms