Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 176

1.

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.

2.

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
3.
4.

Using the Proteomics Identifications Database (PRIDE).

Martens L, Jones P, Côté R.

Curr Protoc Bioinformatics. 2008 Mar;Chapter 13:Unit 13.8. doi: 10.1002/0471250953.bi1308s21.

PMID:
18428683
5.

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
6.

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
7.

ProMEX: a mass spectral reference database for proteins and protein phosphorylation sites.

Hummel J, Niemann M, Wienkoop S, Schulze W, Steinhauser D, Selbig J, Walther D, Weckwerth W.

BMC Bioinformatics. 2007 Jun 23;8:216.

8.

A grid environment for high-throughput proteomics.

Cannataro M, Barla A, Flor R, Jurman G, Merler S, Paoli S, Tradigo G, Veltri P, Furlanello C.

IEEE Trans Nanobioscience. 2007 Jun;6(2):117-23.

PMID:
17695745
9.

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.

10.

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
11.

Experimental Peptide Identification Repository (EPIR): an integrated peptide-centric platform for validation and mining of tandem mass spectrometry data.

Kristensen DB, Brønd JC, Nielsen PA, Andersen JR, Sørensen OT, Jørgensen V, Budin K, Matthiesen J, Venø P, Jespersen HM, Ahrens CH, Schandorff S, Ruhoff PT, Wisniewski JR, Bennett KL, Podtelejnikov AV.

Mol Cell Proteomics. 2004 Oct;3(10):1023-38. Epub 2004 Jul 29.

12.
13.

MannDB - a microbial database of automated protein sequence analyses and evidence integration for protein characterization.

Zhou CL, Lam MW, Smith JR, Zemla AT, Dyer MD, Kuczmarski TA, Vitalis EA, Slezak TR.

BMC Bioinformatics. 2006 Oct 17;7:459.

14.

mMass data miner: an open source alternative for mass spectrometric data analysis.

Strohalm M, Hassman M, Kosata B, Kodícek M.

Rapid Commun Mass Spectrom. 2008;22(6):905-8. doi: 10.1002/rcm.3444. No abstract available.

PMID:
18293430
15.

Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics.

Brusniak MY, Bodenmiller B, Campbell D, Cooke K, Eddes J, Garbutt A, Lau H, Letarte S, Mueller LN, Sharma V, Vitek O, Zhang N, Aebersold R, Watts JD.

BMC Bioinformatics. 2008 Dec 16;9:542. doi: 10.1186/1471-2105-9-542.

16.

VIPER: an advanced software package to support high-throughput LC-MS peptide identification.

Monroe ME, Tolić N, Jaitly N, Shaw JL, Adkins JN, Smith RD.

Bioinformatics. 2007 Aug 1;23(15):2021-3. Epub 2007 Jun 1.

PMID:
17545182
17.

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.

18.

Open source libraries and frameworks for mass spectrometry based proteomics: a developer's perspective.

Perez-Riverol Y, Wang R, Hermjakob H, Müller M, Vesada V, Vizcaíno JA.

Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):63-76. doi: 10.1016/j.bbapap.2013.02.032. Epub 2013 Mar 1. Review.

19.

Using BiblioSpec for creating and searching tandem MS peptide libraries.

Frewen B, MacCoss MJ.

Curr Protoc Bioinformatics. 2007 Dec;Chapter 13:Unit 13.7. doi: 10.1002/0471250953.bi1307s20.

PMID:
18428681
20.

The proteios software environment: an extensible multiuser platform for management and analysis of proteomics data.

Häkkinen J, Vincic G, Månsson O, Wårell K, Levander F.

J Proteome Res. 2009 Jun;8(6):3037-43. doi: 10.1021/pr900189c.

PMID:
19354269

Supplemental Content

Support Center