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Items: 1 to 20 of 362

1.

Critical assessment of alignment procedures for LC-MS proteomics and metabolomics measurements.

Lange E, Tautenhahn R, Neumann S, Gröpl C.

BMC Bioinformatics. 2008 Sep 15;9:375. doi: 10.1186/1471-2105-9-375.

2.

A geometric approach for the alignment of liquid chromatography-mass spectrometry data.

Lange E, Gröpl C, Schulz-Trieglaff O, Leinenbach A, Huber C, Reinert K.

Bioinformatics. 2007 Jul 1;23(13):i273-81.

PMID:
17646306
3.

Design and analysis of quantitative differential proteomics investigations using LC-MS technology.

Bukhman YV, Dharsee M, Ewing R, Chu P, Topaloglou T, Le Bihan T, Goh T, Duewel H, Stewart II, Wisniewski JR, Ng NF.

J Bioinform Comput Biol. 2008 Feb;6(1):107-23.

PMID:
18324749
4.

Semi-supervised LC/MS alignment for differential proteomics.

Fischer B, Grossmann J, Roth V, Gruissem W, Baginsky S, Buhmann JM.

Bioinformatics. 2006 Jul 15;22(14):e132-40.

PMID:
16873463
5.

Data reduction of isotope-resolved LC-MS spectra.

Du P, Sudha R, Prystowsky MB, Angeletti RH.

Bioinformatics. 2007 Jun 1;23(11):1394-400. Epub 2007 May 11.

PMID:
17496000
6.

Time alignment algorithms based on selected mass traces for complex LC-MS data.

Christin C, Hoefsloot HC, Smilde AK, Suits F, Bischoff R, Horvatovich PL.

J Proteome Res. 2010 Mar 5;9(3):1483-95. doi: 10.1021/pr9010124.

PMID:
20070124
7.

MASPECTRAS: a platform for management and analysis of proteomics LC-MS/MS data.

Hartler J, Thallinger GG, Stocker G, Sturn A, Burkard TR, Körner E, Rader R, Schmidt A, Mechtler K, Trajanoski Z.

BMC Bioinformatics. 2007 Jun 13;8:197.

8.

Data pre-processing in liquid chromatography-mass spectrometry-based proteomics.

Zhang X, Asara JM, Adamec J, Ouzzani M, Elmagarmid AK.

Bioinformatics. 2005 Nov 1;21(21):4054-9. Epub 2005 Sep 8.

PMID:
16150809
9.

Graph-based peak alignment algorithms for multiple liquid chromatography-mass spectrometry datasets.

Wang J, Lam H.

Bioinformatics. 2013 Oct 1;29(19):2469-76. doi: 10.1093/bioinformatics/btt435. Epub 2013 Jul 30.

PMID:
23904508
10.

Retention time alignment algorithms for LC/MS data must consider non-linear shifts.

Podwojski K, Fritsch A, Chamrad DC, Paul W, Sitek B, Stühler K, Mutzel P, Stephan C, Meyer HE, Urfer W, Ickstadt K, Rahnenführer J.

Bioinformatics. 2009 Mar 15;25(6):758-64. doi: 10.1093/bioinformatics/btp052. Epub 2009 Jan 28.

PMID:
19176558
11.

Installation and use of the Computational Proteomics Analysis System (CPAS).

Myers T, Law W, Eng JK, McIntosh M.

Curr Protoc Bioinformatics. 2007 Jun;Chapter 13:Unit 13.5. doi: 10.1002/0471250953.bi1305s18.

PMID:
18428786
12.

Multi-profile Bayesian alignment model for LC-MS data analysis with integration of internal standards.

Tsai TH, Tadesse MG, Di Poto C, Pannell LK, Mechref Y, Wang Y, Ressom HW.

Bioinformatics. 2013 Nov 1;29(21):2774-80. doi: 10.1093/bioinformatics/btt461. Epub 2013 Sep 6.

13.

Quantification of uncertainty of peptide retention time predictions from a sequence-based model in LC-MS/MS proteomics experiments.

Yanofsky CM, Kearney RE, Lesimple S, Bergeron JJ, Boismenu D, Carrillo B, Bell AW.

Conf Proc IEEE Eng Med Biol Soc. 2007;2007:1221-4.

PMID:
18002183
14.

Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations.

Elias JE, Haas W, Faherty BK, Gygi SP.

Nat Methods. 2005 Sep;2(9):667-75.

PMID:
16118637
15.

Significance analysis of microarray for relative quantitation of LC/MS data in proteomics.

Roxas BA, Li Q.

BMC Bioinformatics. 2008 Apr 10;9:187. doi: 10.1186/1471-2105-9-187.

16.

Identification of post-translational modifications by blind search of mass spectra.

Tsur D, Tanner S, Zandi E, Bafna V, Pevzner PA.

Nat Biotechnol. 2005 Dec;23(12):1562-7. Epub 2005 Nov 27.

PMID:
16311586
17.

Automated image alignment for 2D gel electrophoresis in a high-throughput proteomics pipeline.

Dowsey AW, Dunn MJ, Yang GZ.

Bioinformatics. 2008 Apr 1;24(7):950-7. doi: 10.1093/bioinformatics/btn059. Epub 2008 Feb 28.

PMID:
18310057
18.

Combining peak- and chromatogram-based retention time alignment algorithms for multiple chromatography-mass spectrometry datasets.

Hoffmann N, Keck M, Neuweger H, Wilhelm M, Högy P, Niehaus K, Stoye J.

BMC Bioinformatics. 2012 Aug 27;13:214. doi: 10.1186/1471-2105-13-214.

19.
20.

Robust algorithm for alignment of liquid chromatography-mass spectrometry analyses in an accurate mass and time tag data analysis pipeline.

Jaitly N, Monroe ME, Petyuk VA, Clauss TR, Adkins JN, Smith RD.

Anal Chem. 2006 Nov 1;78(21):7397-409.

PMID:
17073405

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