通过肽氨甲酰化进行中子编码蛋白质定量分析。
Neutron-encoded protein quantification by peptide carbamylation.
作者信息
Ulbrich Arne, Merrill Anna E, Hebert Alexander S, Westphall Michael S, Keller Mark P, Attie Alan D, Coon Joshua J
机构信息
Department of Chemistry, University of Wisconsin, Madison, WI, 53706, USA.
出版信息
J Am Soc Mass Spectrom. 2014 Jan;25(1):6-9. doi: 10.1007/s13361-013-0765-z. Epub 2013 Oct 29.
Abstract
We describe a chemical tag for duplex proteome quantification using neutron encoding (NeuCode). The method utilizes the straightforward, efficient, and inexpensive carbamylation reaction. We demonstrate the utility of NeuCode carbamylation by accurately measuring quantitative ratios from tagged yeast lysates mixed in known ratios and by applying this method to quantify differential protein expression in mice fed a either control or high-fat diet.
摘要
我们描述了一种使用中子编码（NeuCode）进行双蛋白质组定量的化学标签。该方法利用了直接、高效且廉价的氨甲酰化反应。我们通过准确测量以已知比例混合的标记酵母裂解物的定量比率，并将此方法应用于量化喂食对照饮食或高脂饮食的小鼠中的差异蛋白质表达，证明了NeuCode氨甲酰化的实用性。
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本文引用的文献
1
Neutron-encoded mass signatures for multiplexed proteome quantification.
Nat Methods. 2013 Apr;10(4):332-4. doi: 10.1038/nmeth.2378. Epub 2013 Feb 24.
2
Segmentation of precursor mass range using "tiling" approach increases peptide identifications for MS1-based label-free quantification.
Anal Chem. 2013 Mar 5;85(5):2825-32. doi: 10.1021/ac303352n. Epub 2013 Feb 12.
3
Calorie restriction and SIRT3 trigger global reprogramming of the mitochondrial protein acetylome.
Mol Cell. 2013 Jan 10;49(1):186-99. doi: 10.1016/j.molcel.2012.10.024. Epub 2012 Nov 29.
4
The use of mass defect in modern mass spectrometry.
J Mass Spectrom. 2012 Feb;47(2):226-36. doi: 10.1002/jms.2953.
5
Induction of peroxisomal lipid metabolism in mice fed a high-fat diet.
Mol Med Rep. 2011 Nov-Dec;4(6):1157-62. doi: 10.3892/mmr.2011.560. Epub 2011 Aug 17.
6
COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA.
Proteomics. 2011 Mar;11(6):1064-74. doi: 10.1002/pmic.201000616. Epub 2011 Feb 7.
7
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J Proteome Res. 2010 Mar 5;9(3):1323-9. doi: 10.1021/pr900863u.
8
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Nat Protoc. 2009;4(1):44-57. doi: 10.1038/nprot.2008.211.
9
Quantitative mass spectrometry in proteomics: a critical review.
Anal Bioanal Chem. 2007 Oct;389(4):1017-31. doi: 10.1007/s00216-007-1486-6. Epub 2007 Aug 1.
10
Quantitative carbamylation as a stable isotopic labeling method for comparative proteomics.
Rapid Commun Mass Spectrom. 2007;21(10):1623-34. doi: 10.1002/rcm.2990.
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