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Items: 1 to 20 of 264

1.

MSQuant, an open source platform for mass spectrometry-based quantitative proteomics.

Mortensen P, Gouw JW, Olsen JV, Ong SE, Rigbolt KT, Bunkenborg J, Cox J, Foster LJ, Heck AJ, Blagoev B, Andersen JS, Mann M.

J Proteome Res. 2010 Jan;9(1):393-403. doi: 10.1021/pr900721e.

PMID:
19888749
2.

Mascot file parsing and quantification (MFPaQ), a new software to parse, validate, and quantify proteomics data generated by ICAT and SILAC mass spectrometric analyses: application to the proteomics study of membrane proteins from primary human endothelial cells.

Bouyssié D, Gonzalez de Peredo A, Mouton E, Albigot R, Roussel L, Ortega N, Cayrol C, Burlet-Schiltz O, Girard JP, Monsarrat B.

Mol Cell Proteomics. 2007 Sep;6(9):1621-37. Epub 2007 May 28.

3.

Automated generic analysis tools for protein quantitation using stable isotope labeling.

Hsu WL, Sung TY.

Methods Mol Biol. 2010;604:257-72. doi: 10.1007/978-1-60761-444-9_17.

PMID:
20013376
5.

TOPPView: an open-source viewer for mass spectrometry data.

Sturm M, Kohlbacher O.

J Proteome Res. 2009 Jul;8(7):3760-3. doi: 10.1021/pr900171m.

PMID:
19425593
6.

MaXIC-Q Web: a fully automated web service using statistical and computational methods for protein quantitation based on stable isotope labeling and LC-MS.

Tsou CC, Tsui YH, Yian YH, Chen YJ, Yang HY, Yu CY, Lynn KS, Chen YJ, Sung TY, Hsu WL.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W661-9. doi: 10.1093/nar/gkp476. Epub 2009 Jun 15.

7.

Software pipeline and data analysis for MS/MS proteomics: the trans-proteomic pipeline.

Keller A, Shteynberg D.

Methods Mol Biol. 2011;694:169-89. doi: 10.1007/978-1-60761-977-2_12.

PMID:
21082435
9.

A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS.

Bellew M, Coram M, Fitzgibbon M, Igra M, Randolph T, Wang P, May D, Eng J, Fang R, Lin C, Chen J, Goodlett D, Whiteaker J, Paulovich A, McIntosh M.

Bioinformatics. 2006 Aug 1;22(15):1902-9. Epub 2006 Jun 9.

PMID:
16766559
10.

VEMS 3.0: algorithms and computational tools for tandem mass spectrometry based identification of post-translational modifications in proteins.

Matthiesen R, Trelle MB, Højrup P, Bunkenborg J, Jensen ON.

J Proteome Res. 2005 Nov-Dec;4(6):2338-47.

PMID:
16335983
11.

CHOMPER: a bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies.

Eddes JS, Kapp EA, Frecklington DF, Connolly LM, Layton MJ, Moritz RL, Simpson RJ.

Proteomics. 2002 Sep;2(9):1097-103.

PMID:
12362328
12.

Phosphoproteomics by mass spectrometry and classical protein chemistry approaches.

Salih E.

Mass Spectrom Rev. 2005 Nov-Dec;24(6):828-46. Review.

PMID:
15538747
13.

Methods and algorithms for relative quantitative proteomics by mass spectrometry.

Matthiesen R, Carvalho AS.

Methods Mol Biol. 2010;593:187-204. doi: 10.1007/978-1-60327-194-3_10. Review.

PMID:
19957151
14.

Open mass spectrometry search algorithm.

Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM, Yang X, Shi W, Bryant SH.

J Proteome Res. 2004 Sep-Oct;3(5):958-64.

PMID:
15473683
15.

Global quantitative proteomic profiling through 18O-labeling in combination with MS/MS spectra analysis.

White CA, Oey N, Emili A.

J Proteome Res. 2009 Jul;8(7):3653-65. doi: 10.1021/pr8009098.

PMID:
19400582
16.

Added value for tandem mass spectrometry shotgun proteomics data validation through isoelectric focusing of peptides.

Heller M, Ye M, Michel PE, Morier P, Stalder D, Jünger MA, Aebersold R, Reymond F, Rossier JS.

J Proteome Res. 2005 Nov-Dec;4(6):2273-82.

PMID:
16335976
17.

Bioinformatics support for high-throughput proteomics.

Wilke A, Rückert C, Bartels D, Dondrup M, Goesmann A, Hüser AT, Kespohl S, Linke B, Mahne M, McHardy A, Pühler A, Meyer F.

J Biotechnol. 2003 Dec 19;106(2-3):147-56.

PMID:
14651857
18.

Quantify this! Report on a round table discussion on quantitative mass spectrometry in proteomics.

Quadroni M, Ducret A, Stöcklin R.

Proteomics. 2004 Aug;4(8):2211-5.

PMID:
15274113
19.

An iterative strategy for precursor ion selection for LC-MS/MS based shotgun proteomics.

Zerck A, Nordhoff E, Resemann A, Mirgorodskaya E, Suckau D, Reinert K, Lehrach H, Gobom J.

J Proteome Res. 2009 Jul;8(7):3239-51. doi: 10.1021/pr800835x.

PMID:
19402737
20.

Application of mass spectrometry in proteomics.

Guerrera IC, Kleiner O.

Biosci Rep. 2005 Feb-Apr;25(1-2):71-93. Review.

PMID:
16222421

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