The MEME suite of motif-based sequence analysis tools

基于基序的序列分析工具 MEME 套件

• 批准号: 7234401
• 负责人: William Stafford Noble
• 金额: $ 27.75万
• 依托单位: UNIVERSITY OF WASHINGTON
• 依托单位国家: 美国
• 财政年份: 2005
• 资助国家: 美国
• 起止时间: 2005-08-01 至 2009-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7234401
• 关键词: Algorithms; Base Sequence; Binding; Bioinformatics; Biological; Biological Process; Code; Computer software; DNA; DNA Sequence; Databases; Development; Disease regression; Documentation; Drosophila chb protein; Engineering; Extensible Markup Language; Funding; Genes; Goals; Grant; Institutes; Length; Letters; Maintenance; Mediating; Methods; MicroRNAs; Modeling; Molecular; Operating System; Output; Pattern; Phosphotransferases; Positioning Attribute; Probability; Process; Proteins; RNA; Research Personnel; Running; Sequence Analysis; Signal Transduction; Software Engineering; Software Tools; Standards of Weights and Measures; Structural Protein; Testing; Transcriptional Regulation; Update; Writing; base; improved; interoperability; novel; software development; supercomputer; tool; transcription factor

A wide variety of biological processes and signals are mediated by patterns detectable at the sequence level in proteins, DNA and RNA. For example, one facet of transcriptional regulation of genes involves proteins (transcription factors) recognizing and binding to specific DNA sequence patterns. Other examples of important biological sequence patterns include protein structural domains, microRNAsand the protein target sequences of kinases. The MEME suite of bioinformatics software tools provide biologists with powerful methods for discovering, analyzing and interpreting biological sequence patterns of many types, including those mentioned above. The suite includes onetool - MEME -- that biologists useto discover novel sequence patterns (motifs), and three tools -- Meta-MEME, MCAST and MAST -- that biologists use to search sequence databases for matches to motif-based sequence models. This grant will enable us to dramatically improve the scientific value of the suite to the thousands of biologists who already use it. These improvements will be visible to the biologist using the suite as increased availability, better support, better user-interface and documentation, more powerful algorithms, better interoperability, and faster release cycles. We will achieve these goals via a combination of three specific aims: (1) improved software engineering, (2) ongoing support and (3) continued software development of the suite.

各种各样的生物过程和信号是由在序列水平上可检测的模式介导的 蛋白质、DNA和RNA。例如，基因转录调控的一个方面涉及蛋白质 （转录因子）识别和结合特定的DNA序列模式。的其它实例 重要的生物序列模式包括蛋白质结构域、microRNA和蛋白质靶 激酶序列。MEME生物信息学软件工具套件为生物学家提供了 用于发现、分析和解释多种类型的生物序列模式的强大方法， 包括上面提到的那些。该套件包括一个工具- MEME --生物学家用来发现 新的序列模式（基序）和三种工具-元MEME，MCAST和MAST -生物学家用来 在序列数据库中搜索与基于基序的序列模型的匹配。这笔赠款将使我们能够 对于成千上万已经使用它的生物学家来说，这大大提高了该套件的科学价值。这些 使用该套件的生物学家可以看到改进，因为可用性增加，支持更好， 用户界面和文档、更强大的算法、更好的互操作性和更快的发布速度 自行车.我们将通过三个具体目标的组合来实现这些目标：（1）改进软件 工程，（2）持续的支持和（3）套件的持续软件开发。