Epigenetics Core

表观遗传学核心

基本信息

批准号：
7540231
负责人：
MICHAEL A TEITELL
金额：
$ 10.78万
依托单位：
UNIVERSITY OF CALIFORNIA LOS ANGELES
依托单位国家：
美国
项目类别：
财政年份：
2008
资助国家：
美国
起止时间：
2008-08-01 至 2013-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/7540231
关键词：
Academia Adopted Adoption Area Bioinformatics Biological Assay Cell Count Cells Chromatin Communities Condition Core Facility Cytogenetics DNA DNA Methylation Data Data Collection Detection Epigenetic Process Gene Expression Gene Targeting Genes Genome Genomics Growth Histone H3 Histones Human Resources Hybridization Array Jonsson Comprehensive Cancer Center of University of California Los Angeles Letters Link Measurement Methods Methylation Modification Molecular Profiling Pan Genus Pattern Polymerase Chain Reaction Procedures Process Protocols documentation Publishing Role Sampling Science Services Standards of Weights and Measures Techniques Technology Training Transcription Initiation Site UC01 UC06 Validation WA01 cell line WA09 Cell Line advanced system analytical tool bisulfite chromatin immunoprecipitation comparative data acquisition genome sequencing human embryonic stem cell interest programs promoter technology development tool development

项目摘要

The Epigenetics Core (Core C) provides genome-wide DMA methylation, histone modification, and chromatin immunoprecipitation (ChIP) services, along with targeted gene region analysis and validation, to support the Program Projects. The Epigenetics Core provides direct linkage of services to the Administrative Core A, hESC Core B, Computational/Bioinformatics Core D and also to essential existing UCLA cores, including the Gene Expression Core Facility (S Nelson). The Epigenetics Core is strongly supported by Agilent Technologies (for array platforms, probe technologies, and analytical tool development and adoption) and by key consultants that support Core services, including C Plass and T Huang (DMA methylation), M Grunstein and S Kurdistani (histone modification), and H Cedar (ChIP). Core C will provide genome-wide or targeted detection and validation for altered patterns of DNA methylation in hESCs and derivative differentiated cells from the hESC Core B and from Program Projects 1-3. Core C provides ChIP procedures, probe manufacture, array hybridizations, data collection, and analysis through transfer of data to Computational/ Bioinformatics Core D. The Epigenetics Core will distribute information and protocols and help train personnel (as needed) in each of the Program Projects and Cores and will have a limited but important role in technology development, focusing mainly on reducing cell number inputs for array ChlP-chip technologies with Core users and assessing/incorporating advances in epigenetic modification detection as they become available through the general scientific community and in conjunction with Agilent Technologies. Access to the Solexa 1G high throughput sequencing system for advanced ChlP-chip analysis is through the UCLA Gene Expression Core Facility (S Nelson). As an essential comparative service to the Program Project and to the hESC community as a whole, Epigenetics Core C will provide baseline measurements of global DNA methylation, pan-acetylated histone H3 and H4, and di- and tri-methylated histones, epigenetic markings that reflect active or silenced gene expression, for optimally grown low-passage federally-approved hESC lines UC 01 (HSF-1), UC 06 (HSF-6), WA01 (H1), and Wa09 (H9) for comparative analysis. Expression profiling for these 4 federally-approved lines (already published or to be performed in the existing UCLA Gene Expression Core Facility) will provide a link between epigenetic signatures and effects on hESC gene expression. This information will be made available in a publicly accessible portion of the Program Project Website, with data entry and manipulation password protected.

表观遗传学核心（核心C）提供全基因组DMA甲基化，组蛋白修饰和染色质免疫沉淀（CHIP）服务以及针对性的基因区域分析和验证，以支持计划项目。表观遗传学核心提供服务与行政核心A的直接联系， hESC核心B，计算/生物信息学核心D以及对现有的UCLA核心，包括基因表达核心设施（S Nelson）。表观遗传学核心得到安捷伦的强烈支持技术（用于阵列平台，探测技术以及分析工具的开发和采用）以及支持核心服务的主要顾问，包括C Plass和T Huang（DMA甲基化），M Grunstein 和S Kurdistani（组蛋白修饰）和H Cedar（芯片）。核心C将提供全基因组或目标检测和验证hESC和衍生分化细胞中DNA甲基化模式的改变和验证从hESC核心B和计划项目1-3。 Core C提供芯片程序，探测通过将数据传输到计算/ 生物信息学核心D.表观遗传学核心将分发信息和协议，并帮助培训每个计划项目和核心中的人员（根据需要），并且将发挥有限但重要的作用在技术开发中，主要集中于减少阵列CHLP-CHIP技术的单元编号输入核心用户并评估/纳入表观遗传修饰检测的进步可通过一般科学界以及与敏捷技术一起获得。访问用于高级CHLP芯片分析的Solexa 1G高吞吐量测序系统是通过UCLA 基因表达核心设施（S Nelson）。作为计划项目的基本比较服务，对于整个HESC社区，表观遗传学核心C将提供全球DNA的基线测量甲基化，泛乙酰化组蛋白H3和H4，以及二甲基化组蛋白，表观遗传标记，这些标记反映活跃或沉默的基因表达，以最佳地生长的低模型联邦批准的hESC线 UC 01（HSF-1），UC 06（HSF-6），WA01（H1）和WA09（H9）用于比较分析。表达分析对于这4条联邦批准的线（已经在现有的UCLA基因中发布或执行表达核心设施）将提供表观遗传签名与对hESC基因的影响之间的联系表达。该信息将在程序项目的公共访问部分中提供网站，并保护数据输入和操纵密码。