MASS SPECTROMETRY OF PROTEINS DERIVED FROM SHORT OPEN READING FRAME

短开放阅读框蛋白质的质谱分析

• 批准号: 8363851
• 负责人: JONATHAN S. WEISSMAN
• 金额: --
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-06-01 至 2012-05-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8363851
• 关键词: Algorithms; Amino Acids; Base Sequence; Codon Nucleotides; Funding; Genome; Grant; Length; Mass Spectrum Analysis; Meiosis; Methods; Metric; National Center for Research Resources; Open Reading Frames; Peptides; Principal Investigator; Proteins; Research; Research Infrastructure; Resources; Source; Translating; United States National Institutes of Health; Yeasts; cost; genetic element; interest; polypeptide

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. For almost 20 years, computational efforts to define open reading frames (ORFs) have relied heavily on length of the ORF as a metric for separating the dubious from the genuine. The confidence of these prediction algorithms is proportional to the length of the putative ORF; thus an ORF has been operationally defined as a genetic element that is ultimately translated into a polypeptide of at least 100 amino acids. We have recently developed a sequencing-based method that allows us to determine, in a way that is independent of prior definitions of ORFs, which parts of the genome are being transcribed and translated. This method therefore gives us the ability to experimentally annotate all of the ORFs in any given genome, including those that are shorter than 100 codons, so-called short ORFs (sORFs). Application of this method to yeast undergoing meiosis reveals that there are thousands of sORFs being translated, almost all of which are currently unannotated. We are interested in using mass spectrometry to demonstrate the presence of peptides produced from these sORFs.

这个子项目是许多利用资源的研究子项目之一 由NIH/NCRR资助的中心拨款提供。子项目的主要支持 而子项目的主要调查员可能是由其他来源提供的， 包括其它NIH来源。 列出的子项目总成本可能 代表子项目使用的中心基础设施的估计数量， 而不是由NCRR赠款提供给子项目或子项目工作人员的直接资金。 近20年来，定义开放阅读框架（ORF）的计算工作在很大程度上依赖于ORF的长度作为区分可疑和真实的度量。这些预测算法的置信度与推定ORF的长度成比例;因此ORF已被操作性地定义为最终翻译成至少100个氨基酸的多肽的遗传元件。我们最近开发了一种基于测序的方法，使我们能够以一种独立于先前ORF定义的方式确定基因组的哪些部分正在被转录和翻译。因此，这种方法使我们能够通过实验注释任何给定基因组中的所有ORF，包括那些短于100个密码子的ORF，即所谓的短ORF（sORF）。将这种方法应用于正在进行减数分裂的酵母表明，有数千个sORF被翻译，几乎所有这些都是目前未注释的。我们感兴趣的是使用质谱来证明从这些sORF产生的肽的存在。