The MEME suite of motif-based sequence analysis tools

项目摘要/摘要 DNA和蛋白质序列以复杂的代码数字存储有关生物功能的信息， 目前还没有完全了解。这个编码的基本单位是序列基序，它是定义的 作为一种小的、重复出现的DNA或蛋白质序列模式。例如，可能涉及DNA基序， 打开或关闭基因的转录以响应环境提示。一个蛋白质基序 可能编码允许蛋白质执行其功能的结合位点的属性。这个 基于Motif的序列分析软件Meme Suite构建DNA和蛋白质的统计模型 主题，使生物学家能够发现新的主题，搜索已知主题的新实例，以及 将图案相互比较。这项提议将继续开发和维护表情包套件， 这是世界各地生物学家经常使用的。这项工作的目标有五个方面：(1) 增加表情包套件的可访问性、可用性和互操作性，(2)扩展表情包 处理有关组蛋白修饰、甲基化、核小体定位的表观遗传学数据的套件 和DNaseI超敏感站点，(3)将现有的各种基于Motif的软件工具集成到 Meme Suite，(4)通过已证实的增强来增强Meme Suite使用的算法，以及 (5)继续改善用户支持服务。

Project Summary/Abstract DNA and protein sequences digitally store information about biological function in a complex code that is not yet fully understood. The fundamental unit of this code is the sequence motif, which is defined as a small, recurring DNA or protein sequence pattern. A DNA motif might be involved, for example, in turning on or off the transcription of a gene in response to environmental cues. A protein motif might encode the properties of the binding site that allows the protein to carry out its function. The MEME Suite of motif-based sequence analysis software builds statistical models of DNA and protein motifs, allowing biologists to discover novel motifs, to search for new instances of known motifs, and to compare motifs to one another. This proposal continues to develop and maintain the MEME Suite, which is in regular use by biologists around the world. The aims of this work are five-fold: (1) to increase the accessiblity, usability and interoperability of the MEME Suite, (2) to expand the MEME Suite to handle epigenetic data regarding histone modifications, methylation, nucleosome positioning and DNaseI hypersensitive sites, (3) to integrate a variety of existing motif-based software tools into the MEME Suite, (4) to augment the algorithms used by the MEME Suite with proven enhancements, and (5) to continue to improve our user support services.