Working Backwards from the Proteome

从蛋白质组逆向研究

基本信息

批准号：
7926897
负责人：
DOUGLAS F. LAKE
金额：
$ 29.68万
依托单位：
ARIZONA STATE UNIVERSITY-TEMPE CAMPUS
依托单位国家：
美国
项目类别：
财政年份：
2009
资助国家：
美国
起止时间：
2009-09-04 至 2013-08-31
项目状态：
已结题

项目摘要

DESCRIPTION (provided by applicant): The ENCODE consortium analyzed RNA produced from 1% of the genome. They reported that the transcriptome is incredibly complex, and that approximately 93% of the genome is transcribed into RNA. The current paradigm is that this RNA is "non-protein- coding" and likely plays an unknown regulatory role in the cell. We hypothesize that much of this RNA is not only transcribed, but also translated into protein. To support our hypothesis, we bioinformatically translated into protein the RNA that ENCODE discovered and used it to construct a database for searching mass spectra derived from the proteome of five different cell lines. By starting with the proteome and working backwards toward RNA, we have preliminary data indicating that polyadenylated RNA transcripts from intergenic space are translated. We propose to discover and identify peptides and small proteins translated from ENCODE RNA (1% of genome, 30Mb) and to create a proteomic map that helps connect the proteome to the transcriptome. It would also help clarify the complexities of the transcriptome. If our hypothesis proves correct, it would change current thinking about intergenic space, gene number and provide an opportunity to study new genes and new proteins with new functions. PUBLIC HEALTH RELEVANCE: In humans, the number of genes was estimated to be much higher than the current ~21,000 gene estimate. Because of recent discoveries that the genome is pervasively transcribed, we believe that much of the RNA in a cell is also translated into protein. If true our findings would fuel the discoveries of many new genes with new functions.

描述（由申请人提供）：ENCODE 联盟分析了 1% 基因组产生的 RNA。他们报告说转录组极其复杂，大约 93% 的基因组被转录成 RNA。目前的范式是这种RNA是“非蛋白质编码的”并且可能在细胞中发挥未知的调节作用。我们假设大部分 RNA 不仅被转录，而且被翻译成蛋白质。为了支持我们的假设，我们通过生物信息学将 ENCODE 发现的 RNA 翻译成蛋白质，并用它构建了一个数据库，用于搜索来自五种不同细胞系的蛋白质组的质谱。通过从蛋白质组开始并向后研究 RNA，我们获得了初步数据，表明来自基因间空间的聚腺苷酸化 RNA 转录本已被翻译。我们建议发现和鉴定从 ENCODE RNA（基因组的 1%，30Mb）翻译的肽和小蛋白质，并创建有助于将蛋白质组与转录组连接的蛋白质组图谱。它还将有助于阐明转录组的复杂性。如果我们的假设被证明是正确的，它将改变目前对基因间空间、基因数量的看法，并提供研究新基因和具有新功能的新蛋白质的机会。公共卫生相关性：在人类中，基因数量估计远高于目前约 21,000 个基因的估计值。由于最近发现基因组普遍转录，我们相信细胞中的大部分 RNA 也被翻译成蛋白质。如果属实，我们的发现将推动许多具有新功能的新基因的发现。