Real Time Proteomic Analysis of Peptides and Proteins

肽和蛋白质的实时蛋白质组分析

• 批准号: 6965407
• 负责人: Ross Kenneth Snider
• 金额: $ 14.98万
• 依托单位: SNIDER TECHNOLOGY, INC.
• 依托单位国家: 美国
• 财政年份: 2005
• 资助国家: 美国
• 起止时间: 2005-09-23 至 2007-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6965407
• 关键词: bioengineering /biomedical engineering; bioinformatics; biotechnology; computational biology; computer assisted sequence analysis; computer system design /evaluation; mass spectrometry; protein quantitation /detection; protein structure function; proteomics; supercomputer; time resolved data

DESCRIPTION (provided by applicant): Hylitech, Inc. proposes a solution to overcome a major computational bottleneck in proteomics-by building a dedicated low-cost supercomputer system that performs real time peptide and protein identification from mass spectral data. Current peptide and protein identification requires computational processing that lags mass spectral data acquisition by hours or even days. The utilization of an FPGA platform will allow matches between experimental data and possible peptides or modified peptides to be evaluated in real time, while data acquisition is in progress. Fast identification of peptides and modified peptides will allow more efficient use of scarce mass spectrometer time and enable a much deeper investigation to discover low abundance regulatory species in the proteome. This time and cost effective approach to proteomic data analysis will speed research, improve discovery of disease markers, facilitate development of more effective diagnostics, and foster the creation of personalized medicine. Real time analysis will be accomplished by designing a peptide processing unit (PPU) that will be replicated across FPGAs. A system level design will achieve the supercomputing performance required to provide a real-time solution. This will bring major acceleration of proteomic data analysis to biomedicine, while providing significant cost savings compared to conventional multi-microprocessor based systems.

描述（由申请人提供）：Hylitech, Inc.提出了一种解决方案，通过建立一个专用的低成本超级计算机系统，从质谱数据中进行实时肽和蛋白质鉴定，来克服蛋白质组学的主要计算瓶颈。目前的肽和蛋白质鉴定需要计算处理，滞后于质谱数据采集数小时甚至数天。利用FPGA平台可以实时评估实验数据与可能的肽或修饰肽之间的匹配，同时数据采集正在进行中。快速鉴定肽和修饰肽将允许更有效地利用稀缺的质谱仪时间，并使更深入的研究发现蛋白质组中的低丰度调节物种。这种既省时又经济的蛋白质组学数据分析方法将加速研究，改善疾病标记物的发现，促进更有效诊断的发展，并促进个性化医疗的创造。实时分析将通过设计一个多肽处理单元（PPU）来完成，该单元将在fpga中复制。系统级设计将实现提供实时解决方案所需的超级计算性能。这将大大加速生物医学的蛋白质组学数据分析，同时与传统的基于多微处理器的系统相比，可显著节省成本。