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Items: 19

1.

Comparison of database search strategies for high precursor mass accuracy MS/MS data.

Hsieh EJ, Hoopmann MR, MacLean B, MacCoss MJ.

J Proteome Res. 2010 Feb 5;9(2):1138-43. doi: 10.1021/pr900816a.

2.

Comparative proteomic phenotyping of cell lines and primary cells to assess preservation of cell type-specific functions.

Pan C, Kumar C, Bohl S, Klingmueller U, Mann M.

Mol Cell Proteomics. 2009 Mar;8(3):443-50. doi: 10.1074/mcp.M800258-MCP200. Epub 2008 Oct 23.

3.

SILAC mouse for quantitative proteomics uncovers kindlin-3 as an essential factor for red blood cell function.

Krüger M, Moser M, Ussar S, Thievessen I, Luber CA, Forner F, Schmidt S, Zanivan S, Fässler R, Mann M.

Cell. 2008 Jul 25;134(2):353-64. doi: 10.1016/j.cell.2008.05.033.

4.

Rapid determination of amino acid incorporation by stable isotope labeling with amino acids in cell culture (SILAC).

Schmidt F, Strozynski M, Salus SS, Nilsen H, Thiede B.

Rapid Commun Mass Spectrom. 2007;21(23):3919-26.

PMID:
17979108
5.

An experimental correction for arginine-to-proline conversion artifacts in SILAC-based quantitative proteomics.

Van Hoof D, Pinkse MW, Oostwaard DW, Mummery CL, Heck AJ, Krijgsveld J.

Nat Methods. 2007 Sep;4(9):677-8. No abstract available.

PMID:
17762871
6.
7.
8.

Functional and quantitative proteomics using SILAC.

Mann M.

Nat Rev Mol Cell Biol. 2006 Dec;7(12):952-8. doi: 10.1038/nrm2067. Review.

PMID:
17139335
9.

Quantification of protein half-lives in the budding yeast proteome.

Belle A, Tanay A, Bitincka L, Shamir R, O'Shea EK.

Proc Natl Acad Sci U S A. 2006 Aug 29;103(35):13004-9. Epub 2006 Aug 17.

10.

General framework for developing and evaluating database scoring algorithms using the TANDEM search engine.

MacLean B, Eng JK, Beavis RC, McIntosh M.

Bioinformatics. 2006 Nov 15;22(22):2830-2. Epub 2006 Jul 28.

PMID:
16877754
11.

A uniform proteomics MS/MS analysis platform utilizing open XML file formats.

Keller A, Eng J, Zhang N, Li XJ, Aebersold R.

Mol Syst Biol. 2005;1:2005.0017. Epub 2005 Aug 2.

12.

Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.

Gruhler A, Olsen JV, Mohammed S, Mortensen P, Faergeman NJ, Mann M, Jensen ON.

Mol Cell Proteomics. 2005 Mar;4(3):310-27. Epub 2005 Jan 22.

13.

TANDEM: matching proteins with tandem mass spectra.

Craig R, Beavis RC.

Bioinformatics. 2004 Jun 12;20(9):1466-7. Epub 2004 Feb 19.

PMID:
14976030
14.
15.

Properties of 13C-substituted arginine in stable isotope labeling by amino acids in cell culture (SILAC).

Ong SE, Kratchmarova I, Mann M.

J Proteome Res. 2003 Mar-Apr;2(2):173-81.

PMID:
12716131
16.

Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search.

Keller A, Nesvizhskii AI, Kolker E, Aebersold R.

Anal Chem. 2002 Oct 15;74(20):5383-92.

PMID:
12403597
17.

Dynamics of protein turnover, a missing dimension in proteomics.

Pratt JM, Petty J, Riba-Garcia I, Robertson DH, Gaskell SJ, Oliver SG, Beynon RJ.

Mol Cell Proteomics. 2002 Aug;1(8):579-91.

18.

Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics.

Ong SE, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, Mann M.

Mol Cell Proteomics. 2002 May;1(5):376-86.

19.

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