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Items: 1 to 20 of 60

1.

DECOMP--from interpreting Mass Spectrometry peaks to solving the Money Changing Problem.

Böcker S, Lipták Z, Martin M, Pervukhin A, Sudek H.

Bioinformatics. 2008 Feb 15;24(4):591-3. doi: 10.1093/bioinformatics/btm631. Epub 2008 Jan 2.

PMID:
18174179
2.

UniMoG--a unifying framework for genomic distance calculation and sorting based on DCJ.

Hilker R, Sickinger C, Pedersen CN, Stoye J.

Bioinformatics. 2012 Oct 1;28(19):2509-11. Epub 2012 Jul 18.

3.
4.

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
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.

ChromA: signal-based retention time alignment for chromatography-mass spectrometry data.

Hoffmann N, Stoye J.

Bioinformatics. 2009 Aug 15;25(16):2080-1. doi: 10.1093/bioinformatics/btp343. Epub 2009 Jun 8.

7.

Expertomica metabolite profiling: getting more information from LC-MS using the stochastic systems approach.

Urban J, Vanek J, Soukup J, Stys D.

Bioinformatics. 2009 Oct 15;25(20):2764-7. doi: 10.1093/bioinformatics/btp427. Epub 2009 Jul 14.

PMID:
19602528
8.

MassUntangler: a novel alignment tool for label-free liquid chromatography-mass spectrometry proteomic data.

Ballardini R, Benevento M, Arrigoni G, Pattini L, Roda A.

J Chromatogr A. 2011 Dec 9;1218(49):8859-68. doi: 10.1016/j.chroma.2011.06.062. Epub 2011 Jun 22.

PMID:
21783198
9.

Improving peptide identification with single-stage mass spectrum peaks.

He Z, Yu W.

Bioinformatics. 2009 Nov 15;25(22):2969-74. doi: 10.1093/bioinformatics/btp501. Epub 2009 Aug 18.

PMID:
19689954
10.

OMSSA Parser: an open-source library to parse and extract data from OMSSA MS/MS search results.

Barsnes H, Huber S, Sickmann A, Eidhammer I, Martens L.

Proteomics. 2009 Jul;9(14):3772-4. doi: 10.1002/pmic.200900037.

PMID:
19639591
11.

Towards de novo identification of metabolites by analyzing tandem mass spectra.

Böcker S, Rasche F.

Bioinformatics. 2008 Aug 15;24(16):i49-i55. doi: 10.1093/bioinformatics/btn270.

PMID:
18689839
12.

A proteomic tool for protein identification from tandem mass spectral data.

Zhao Y, Lin YH.

Proteomics. 2005 Mar;5(4):853-5.

PMID:
15668998
13.

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
14.

Genome annotation of Anopheles gambiae using mass spectrometry-derived data.

Kalume DE, Peri S, Reddy R, Zhong J, Okulate M, Kumar N, Pandey A.

BMC Genomics. 2005 Sep 19;6:128.

15.
16.

GlycoWorkbench: a tool for the computer-assisted annotation of mass spectra of glycans.

Ceroni A, Maass K, Geyer H, Geyer R, Dell A, Haslam SM.

J Proteome Res. 2008 Apr;7(4):1650-9. doi: 10.1021/pr7008252. Epub 2008 Mar 1.

PMID:
18311910
17.

pymzML--Python module for high-throughput bioinformatics on mass spectrometry data.

Bald T, Barth J, Niehues A, Specht M, Hippler M, Fufezan C.

Bioinformatics. 2012 Apr 1;28(7):1052-3. doi: 10.1093/bioinformatics/bts066. Epub 2012 Feb 2.

PMID:
22302572
18.

MetaboAnalyst: a web server for metabolomic data analysis and interpretation.

Xia J, Psychogios N, Young N, Wishart DS.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W652-60. doi: 10.1093/nar/gkp356. Epub 2009 May 8.

19.

Envelope: interactive software for modeling and fitting complex isotope distributions.

Sykes MT, Williamson JR.

BMC Bioinformatics. 2008 Oct 20;9:446. doi: 10.1186/1471-2105-9-446.

20.

Proteomics-grade de novo sequencing approach.

Savitski MM, Nielsen ML, Kjeldsen F, Zubarev RA.

J Proteome Res. 2005 Nov-Dec;4(6):2348-54.

PMID:
16335984

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