Core B -The Bio-Informatics Core

核心 B - 生物信息学核心

• 批准号: 10132257
• 负责人: Arnold Levine
• 金额: $ 18.6万
• 依托单位: COLUMBIA UNIV NEW YORK MORNINGSIDE
• 依托单位国家: 美国
• 财政年份: 2000
• 资助国家: 美国
• 起止时间: 2000-09-30 至 2023-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10132257
• 关键词: 3-Dimensional; American; Animal Model; Binding; Bioinformatics; Biological Assay; Biology; Cancer Biology; Catalogs; Cause of Death; Cell Culture Techniques; Cell Death; Cells; ChIP-seq; Cholesterol; Chromatin; Collaborations; Complex; Complex Analysis; Computer software; Computing Methodologies; DNA; DNA Damage; DNA sequencing; Data; Data Analyses; Data Set; Databases; Disease; Future; Gene Expression; Gene Expression Profile; Gene Expression Profiling; Genes; Genetic Transcription; Genomics; Goals; Grant; Histones; Human; Individual; Informatics; Institutes; Lymphoma; Malignant Neoplasms; Malignant neoplasm of liver; Malignant neoplasm of prostate; Maps; Messenger RNA; Methods; Modification; Mus; Mutation; Nature; Network Infrastructure; Oncogenes; Organoids; Output; Pathway interactions; Pattern; Phenotype; Protein Analysis; Proteins; RNA; Regulation; Research; Research Personnel; Role; Series; Services; Somatic Mutation; Structure; TP53 gene; Techniques; Technology; Testing; Therapeutic; Tissues; Transcript; Tumor Tissue; Untranslated RNA; Work; anticancer research; base; cancer cell; cancer genomics; cancer stem cell; cholesterol biosynthesis; embryonic stem cell; experience; experimental study; gain of function; genetic variant; genome-wide; genome-wide analysis; induced pluripotent stem cell; insight; large datasets; malignant breast neoplasm; mutant; novel; programs; protein complex; response; stem cells; success; transcriptome sequencing; triple-negative invasive breast carcinoma; tumor

CORE B SUMMARY The advent of a wide variety of high throughput techniques has enabled the rapid sequencing of DNA and RNA and the identification of large numbers of proteins in protein complexes. These technologies, and their further iterations, have in turn allowed researchers to identify and catalog the somatic mutations in cancer, associate genetic variants with disease, the abundance of individual mRNA transcripts in every cell, the nature and expression of a range of non-coding RNA species, and the nature of modifications on histones and DNA. While the data arising from these methods has the power to produce enormous insights into cancer, the datasets produced are large, unwieldy, and of varying quality. Consequently, the role of bioinformatics in cancer research has become a necessity for the proper interpretation of data. The goal of Core B is to provide support for program investigators in the analysis and interpretation of these large datasets. It takes advantage of the expertise of Dr. Levine, a pioneer in the p53 field who has used computational approaches to reveal new insights into the p53 network, and the infrastructure at the Institute for Advanced Study. In the current iteration of the grant, the four projects will interact with Core B to continue to explore the roles and regulation of p53, with an emphasis on the context dependent nature of p53 action and the action of p53 mutants, the role of p53 in DNA damage and oncogene responses, the impact of a novel form of cell death – ferroptosis – on the output of the p53 network, and on developing therapeutic strategies to exploit p53 mutations or the consequences of p53 loss. All of these significant questions rely a variety of `omics technologies for assessing gene expression, chromatin configurations, and many other applications. As such, core B is essential for the proper analysis of these data and as such is central to the program's success.

核心B摘要 各种高通量技术的出现使快速测序成为可能 DNA和RNA以及蛋白质复合体中大量蛋白质的鉴定。这些 技术及其进一步的迭代反过来使研究人员能够识别和 对癌症的体细胞突变进行分类，将基因变异与疾病联系起来， 每个细胞中单个mRNA转录本的丰度，一系列的性质和表达 非编码RNA物种，以及组蛋白和DNA修饰的性质。而数据 这些方法产生的力量对癌症有巨大的洞察力， 产生的数据集很大，难以操作，而且质量参差不齐。因此，这一角色 癌症研究中的生物信息学已经成为正确解释数据的必要手段。 核心B的目标是为项目调查人员提供分析和 对这些大型数据集的解释。它利用了莱文博士的专业知识，他是一位 P53领域的先驱，他使用计算方法揭示了对 P53网络和高级研究所的基础设施。在当前的迭代中 拨款后，四个项目将与核心B互动，继续探索角色和 对P53的调控，重点是P53作用的上下文依赖性质和 P53突变体的作用，P53在DNA损伤和癌基因反应中的作用 细胞死亡的新形式--铁下垂--关于P53网络的输出和发展 利用P53突变或P53缺失后果的治疗策略。所有这些都是 重要的问题依赖于各种评估基因表达的组学技术， 染色质配置和许多其他应用。因此，核心B对于 对这些数据进行适当的分析是该项目成功的关键。