X-tracker: a generic quantitation tool for MS-based proteomics:

X-tracker：基于 MS 的蛋白质组学通用定量工具：

• 批准号: BB/F016107/1
• 负责人: Conrad Bessant
• 金额: $ 13.14万
• 依托单位: CRANFIELD UNIVERSITY
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2008
• 资助国家: 英国
• 起止时间: 2008 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FF016107%2F1
• 关键词: tracker; generic; quantitation; tool; MS

The completion of the Human Genome Project, which set out to read the entire DNA 'blueprint' for a human being, was one of the greatest scientific achievements of recent times. However, there is a limit to what the genome itself can tell us about how a human being grows and functions, as it does not change according to time or tissue type, and varies little between individuals of the same species. To get a real insight into biology and disease mechanisms, we need to look at the proteins expressed from the genome, as these are the molecules that actually do the work in the body. As the protein complement of a cell varies tremendously over time, between tissue types, and in response to environmental conditions, developing methods to identify which proteins are present, and in what quantities, in a particular sample is crucial. Proteomics is the name given to the science of identifying all the proteins within a sample. This is typically achieved by separating the proteins, breaking them up into smaller peptides, and analysing them with mass spectrometry (MS) to generate a characteristic spectrum which can be matched to a sequence known to exist in the genome. Methods to quantify the amount of proteins in a sample, either in relation to other samples or absolutely, have been developed based around the same technology. In previous projects we have developed computational methods that help to identify proteins and to quantitate them. Respectively, these are the Genome Annotating Proteomic Pipeline (GAPP) and i-Tracker. There are however a number of quantitation methods available and more are being developed, but there is currently no easy way of both identifying and quantifying proteins within the same package for a number of different quantitation methods. Nor is there an easy way to modify or add methods to a system to suit techniques specific to one laboratory. The aim of this proposal is to provide a system that meets this need and thereby to facilitate performing quantitative proteomics experiments and also the dissemination of novel methods throughout the community.

人类基因组计划的完成是近代最伟大的科学成就之一，该计划旨在读取人类的整个 DNA“蓝图”。然而，基因组本身所能告诉我们的关于人类如何生长和发挥功能的信息是有限的，因为它不会根据时间或组织类型而变化，而且同一物种的个体之间差异很小。为了真正了解生物学和疾病机制，我们需要研究基因组表达的蛋白质，因为这些是实际在体内发挥作用的分子。由于细胞的蛋白质补体随着时间、组织类型和环境条件的不同而发生巨大变化，因此开发方法来识别特定样品中存在哪些蛋白质以及数量是至关重要的。蛋白质组学是识别样品中所有蛋白质的科学的名称。这通常是通过分离蛋白质、将它们分解成更小的肽并用质谱 (MS) 对其进行分析来生成特征谱来实现的，该特征谱可以与基因组中已知存在的序列相匹配。基于相同的技术，已经开发了量化样品中蛋白质含量的方法，无论是相对于其他样品还是绝对的。在之前的项目中，我们开发了有助于识别蛋白质并对其进行定量的计算方法。它们分别是基因组注释蛋白质组管道 (GAPP) 和 i-Tracker。然而，有多种可用的定量方法，并且更多的定量方法正在开发中，但目前还没有一种简单的方法可以在同一包内针对多种不同的定量方法来识别和定量蛋白质。也没有一种简单的方法可以修改或向系统添加方法以适应某个实验室的特定技术。该提案的目的是提供一个满足这一需求的系统，从而促进定量蛋白质组学实验的进行以及在整个社区传播新方法。