近一段時間，一直不斷有Mann的新技術出現，THERMO的儀器基本上都是Mann首先發出的文章；而Aebersold自從回到瑞士以后在技術方面出的東西不多，今年ASMS質譜年會發布了和AB共同研究的SWATH技術。因未參會，一直也沒有搞清是什么技術，這次在日內瓦的HUPO會議上，有幸聽Aebersold本人講了一下，對這個技術有了一個全面的了解。個人認為：這個技術有可能是蛋白質組學技術發展的一個里程碑，有取代目前DDA（data-dependent acquisition）技術的可能性。
瑞士日內瓦Matthias_MannRuedi Albersold SWATH技術采用對全質量范圍（
400 - 2,000 Da）進行分段做MS/MS的方式，應用AB公司的5600質譜儀，
可以在1秒內完成全質量范圍的分析，所得數據應用MRMAtlas數據庫進行比對分析，可以得到
低到100個拷貝的蛋白質的鑒定。這種方式不僅靈敏度高，而且通量遠超過目前的DDA技術。
以前也有類似的技術，如WATERS公司的MS
E和Mann團隊不久前開發的AIF技術，這些技術都是對
全譜進行MS/MS分析，雖然也可以提高鑒定效率，但因為全譜復雜度很高，增加了數據分析難度。
SWATH把全質量范圍分段，借鑒了以前的GPF技術，降低了譜圖的復雜性，增加了動態范圍，同時應用現有數據庫比對的方式進行數據分析，解決了譜圖解析的難題。而5600質譜儀的高掃描速度和高質量精度為此技術的實現提供了儀器方面的保證。
可以肯定的是，這個新技術會對目前的DDA分析技術產生巨大的沖擊！不過，因為此技術的主要難點是在軟件方面，隨著THERMO推出Q-EXACTIVE，不知是否THERMO也會來搶占這個技術要點，希望到時可以給用戶更多的選擇機會。
TripleTOF? 5600質譜系統
SWATH-MS: A NEW DATA INDEPENDENT ACQUISITION LC-MS METHODOLOGY FOR QUANTITATIVE COMPLETE PROTEOME ANALYSIS
P. Navarro (1) , L. Gillet (1) , C. Carapito (2) , H. R?st (1) , L. Reiter (3) , O. Rinner (3) , S. Tate (4) , R. Bonner (4) , L. Malmstr?m (1) , R. Aebersold (1) .
(1) Institute of Molecular Systems Biology, ETH Zürich, (2) CNRS, Université de Strasbourg, (3) Biognosys AG, (4) ABSciex.
The analysis of biomolecules in complex sample mixtures has relied for many years on LC-MS. In proteomics selected reaction monitoring (SRM) is a particularly attractive technique in cases in which reproducible data sets with high quantitative accuracy and wide dynamic range are required [1,2]. Despite the advances of SRM, the method presents certain limitations: the method requires a preliminary selection of reactions, and allows monitoring of a limited number of analytes per run. 因其重現性好、定量高準確度、寬動態范圍，SRM在蛋白質組定量中成為非常有吸引力的技術。然而SRM的局限性是：必須是目標物，一次分析的數量有限。
To overcome these limitations we introduce a new strategy to acquire fragment ion spectra on all the analytes in a sample, by cycling a sequence of precursor ion selection windows in the mass analyzer that collectively cover the whole targeted mass range during the entire chromatography. These windows may be seen as an analogy of the swath acquisitions in Earth satellite scans. The collected fragment ion spectra are recorded to generate a map with the dimensions
retention time - fragment ion m/z - and intensity, for each precursor ion selection window. The data analysis is then performed in the translation of the product ion spectra acquired for each isolation window into separate LC-MS2 maps, from where the fragments, derived from a spectral library and defining any precursor of interest can be extracted and analyzed to unambiguously detect and quantify the targeted analytes in the injected sample. The confidence in the peptide identification is scored based on the mass accuracy and the relative intensities of the acquired product ion fragments compared to that of the reference spectrum and on the co-elution of the extracted ion chromatograms of these fragments. Altogether, this methodology is expected outperform former LC-MS methods in terms of identification rates, quantification speed and accuracy, reproducibility of data collection, and should therefore be of large interest for performing LC-MS analyses of samples of high complexity.
[1] Lange, V.; Picotti, P.; Domon, B.; Aebersold, R. Mol Syst Biol. 2008, 4, 222.
[2] Picotti, P.; Bodenmiller, B.; Mueller, L. N.; Domon, B.; Aebersold, R. Cell. 2009, 138, 795-806.
