Chromatin Landscaping of TGF-P/SMAD Signaling Targets

TGF-P/SMAD 信号靶标的染色质景观

基本信息

批准号：
7557488
负责人：
Joel H. Saltz
金额：
$ 27.44万
依托单位：
OHIO STATE UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
资助国家：
美国
起止时间：
至
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/7557488
关键词：
Affect Antibodies Binding Binding Sites Biological Assay Biological Neural Networks Cataloging Catalogs Chromatin Chromatin Structure Classification Complex Databases Epigenetic Process Epithelium Euchromatin Event Gene Targeting Genetic Genomics Growth Heterochromatin Histones Information Resources Length Logistic Regressions Malignant neoplasm of ovary Maps Mediating Methods Modeling Modification Neoplastic Processes Ovarian Ovary Pathway interactions Pattern Recognition Play Polymerase Chain Reaction Promoter Regions Proteins Relative (related person)Reporting Role Signal Pathway Signal Transduction Statistical Models Surface Surveys TGFB1 gene Testing Tissues Transcriptional Regulation Transforming Growth Factor beta base cancer cell cell transformation chromatin remodeling combinatorial comparative computerized tools knowledge base neoplastic novel programs promoter tool transcription factor

项目摘要

The TGF-beta/SMAD signaling network plays an important role in growth inhibition of normal epithelia. In neoplastic processes, genetic and epigenetic losses of TGF-beta/SMAD signaling can result in outgrowth and invasion of transformed cells. In ovarian cancer, it has recently been reported that TGF-beta/SMAD signaling can become non-responsive to activators of TGF-beta, despite the fact that upstream regulators, such as TbetaRII, remain genetically intact and functional. Thus, it appears that other aberrant events, perhaps affecting co-activators or co-repressors of this growth inhibitory pathway, trigger epigenetic perturbations in TGF-beta/SMAD downstream targets. These as of yet un-explored perturbations have the potential to gradually alter chromatin structure in and around promoters of target genes and may be somatically heritable. We hypothesize that epigenetic deregulation TGF-beta/SMAD signaling may alter transcriptional profiles of TGF-beta/SMAD target genes, resulting in the initiation and promotion of neoplastic outgrowth of the ovarian surface epithelium. To test our hypothesis, we will comprehensively survey and compare regional chromatin profiles (active or repressed state) of TGF-beta/SMAD target promoters in ovarian cancer versus normal epithelia. Relative to this epigenetic phenomenon, SMAD-mediated transcription regulation also depends on other mechanisms, such as tissue-specific factors, promoter sequences, and cooperative interaction with other DMA-binding transcription factors. We will use computational tools to identify putative TGF-beta/SMAD target sequences and determine their functional relationship with local chromatin structure in ovarian epithelia. A novel microarray-based ChlP-on-chip assay will be developed to experimentally determine whether chromatin remodeling (i.e., histone modifications) of these predicted promoters occurs in ovarian cancer. Statistical approaches will be proposed to model the interaction between SMAD complexes and altered chromatin structure and to define unique epigenetic signatures in ovarian cancer cells. Specifically, we will 1) develop KbTSMAD (Knowledge base of TGF-beta/SMAD signaling pathway), an information resource of the TGF-beta/SMAD signaling pathway and its direct target gene promoters; 2) determine profiles of chromatin remodeling in these downstream loci in ovarian cancer cells; and 3) develop statistical approaches for modeling the synergistic interaction between TGF-beta/SMAD complex and altered chromatin structure and for defining unique epigenetic signatures in ovarian cancer cells.

TGF-β/SMAD 信号网络在正常上皮细胞的生长抑制中发挥重要作用。在肿瘤形成过程中，TGF-β/SMAD 信号传导的遗传和表观遗传损失可能导致转化细胞的生长和侵袭。最近有报道称，在卵巢癌中，TGF-β/SMAD 信号转导可能对 TGF-β 激活剂无反应，尽管上游调节因子（例如 TbetaRII）仍然保持遗传完整和功能。因此，看来其他异常事件可能会影响共激活剂或该生长抑制途径的共抑制因子，触发 TGF-β/SMAD 下游靶标的表观遗传扰动。这些尚未探索的扰动有可能逐渐改变靶基因启动子内部和周围的染色质结构，并且可能是体细胞遗传的。我们假设表观遗传失调 TGF-β/SMAD 信号传导可能会改变 TGF-β/SMAD 靶基因的转录谱，导致卵巢表面上皮肿瘤生长的启动和促进。为了检验我们的假设，我们将全面调查和比较卵巢癌与正常上皮细胞中 TGF-β/SMAD 靶启动子的区域染色质谱（活跃或抑制状态）。相对于这种表观遗传现象，SMAD介导的转录调控还依赖于其他机制，例如组织特异性因子、启动子序列以及与其他DMA结合转录因子的协同相互作用。我们将使用计算工具来识别假定的 TGF-β/SMAD 靶序列，并确定它们与卵巢上皮局部染色质结构的功能关系。将开发一种基于微阵列的新型 ChlP-on-chip 检测，以通过实验确定这些预测启动子的染色质重塑（即组蛋白修饰）是否发生在卵巢癌中。统计方法将提议模拟 SMAD 复合物和改变的染色质结构之间的相互作用，并定义卵巢癌细胞中独特的表观遗传特征。具体来说，我们将1）开发KbTSMAD（TGF-β/SMAD信号通路知识库），这是TGF-β/SMAD信号通路及其直接靶基因启动子的信息资源； 2) 确定卵巢癌细胞中这些下游基因座的染色质重塑概况； 3) 开发统计方法来模拟 TGF-β/SMAD 复合物与改变的染色质结构之间的协同相互作用，并定义独特的表观遗传卵巢癌细胞的特征。