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Items: 1 to 20 of 84

1.

The FAST-AIMS Clinical Mass Spectrometry Analysis System.

Fananapazir N, Statnikov A, Aliferis CF.

Adv Bioinformatics. 2009:598241. doi: 10.1155/2009/598241. Epub 2009 Jul 9.

2.

Formative evaluation of a prototype system for automated analysis of mass spectrometry data.

Fananapazir N, Li M, Spentzos D, Aliferis CF.

AMIA Annu Symp Proc. 2005:241-5.

3.

ATAQS: A computational software tool for high throughput transition optimization and validation for selected reaction monitoring mass spectrometry.

Brusniak MY, Kwok ST, Christiansen M, Campbell D, Reiter L, Picotti P, Kusebauch U, Ramos H, Deutsch EW, Chen J, Moritz RL, Aebersold R.

BMC Bioinformatics. 2011 Mar 18;12:78. doi: 10.1186/1471-2105-12-78.

4.

metAlignID: a high-throughput software tool set for automated detection of trace level contaminants in comprehensive LECO two-dimensional gas chromatography time-of-flight mass spectrometry data.

Lommen A, van der Kamp HJ, Kools HJ, van der Lee MK, van der Weg G, Mol HG.

J Chromatogr A. 2012 Nov 9;1263:169-78. doi: 10.1016/j.chroma.2012.09.056. Epub 2012 Sep 24.

PMID:
23046623
5.

Methods for comparative metagenomics.

Huson DH, Richter DC, Mitra S, Auch AF, Schuster SC.

BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S12. doi: 10.1186/1471-2105-10-S1-S12.

6.

Translational Metabolomics of Head Injury: Exploring Dysfunctional Cerebral Metabolism with Ex Vivo NMR Spectroscopy-Based Metabolite Quantification.

Wolahan SM, Hirt D, Glenn TC.

In: Kobeissy FH, editor. Brain Neurotrauma: Molecular, Neuropsychological, and Rehabilitation Aspects. Boca Raton (FL): CRC Press/Taylor & Francis; 2015. Chapter 25.

7.

Decon2LS: An open-source software package for automated processing and visualization of high resolution mass spectrometry data.

Jaitly N, Mayampurath A, Littlefield K, Adkins JN, Anderson GA, Smith RD.

BMC Bioinformatics. 2009 Mar 17;10:87. doi: 10.1186/1471-2105-10-87.

8.

Feature selection and machine learning with mass spectrometry data.

Datta S.

Methods Mol Biol. 2013;1007:237-62. doi: 10.1007/978-1-62703-392-3_10.

PMID:
23666729
9.

BDVal: reproducible large-scale predictive model development and validation in high-throughput datasets.

Dorff KC, Chambwe N, Srdanovic M, Campagne F.

Bioinformatics. 2010 Oct 1;26(19):2472-3. doi: 10.1093/bioinformatics/btq463. Epub 2010 Aug 11.

10.

Proteomic data analysis workflow for discovery of candidate biomarker peaks predictive of clinical outcome for patients with acute myeloid leukemia.

Forshed J, Pernemalm M, Tan CS, Lindberg M, Kanter L, Pawitan Y, Lewensohn R, Stenke L, Lehtiö J.

J Proteome Res. 2008 Jun;7(6):2332-41. doi: 10.1021/pr070482e. Epub 2008 May 2.

PMID:
18452325
11.

MeltDB: a software platform for the analysis and integration of metabolomics experiment data.

Neuweger H, Albaum SP, Dondrup M, Persicke M, Watt T, Niehaus K, Stoye J, Goesmann A.

Bioinformatics. 2008 Dec 1;24(23):2726-32. doi: 10.1093/bioinformatics/btn452. Epub 2008 Sep 2.

PMID:
18765459
12.

Functional genomics and proteomics in the clinical neurosciences: data mining and bioinformatics.

Phan JH, Quo CF, Wang MD.

Prog Brain Res. 2006;158:83-108. Review.

PMID:
17027692
13.

An automated proteomic data analysis workflow for mass spectrometry.

Pendarvis K, Kumar R, Burgess SC, Nanduri B.

BMC Bioinformatics. 2009 Oct 8;10 Suppl 11:S17. doi: 10.1186/1471-2105-10-S11-S17.

14.

GProX, a user-friendly platform for bioinformatics analysis and visualization of quantitative proteomics data.

Rigbolt KT, Vanselow JT, Blagoev B.

Mol Cell Proteomics. 2011 Aug;10(8):O110.007450. doi: 10.1074/mcp.O110.007450. Epub 2011 May 20.

15.
16.

Adapting mass spectrometry-based platforms for clinical proteomics applications: The capillary electrophoresis coupled mass spectrometry paradigm.

Metzger J, Luppa PB, Good DM, Mischak H.

Crit Rev Clin Lab Sci. 2009;46(3):129-52. doi: 10.1080/10408360902805261. Review.

PMID:
19404829
17.

jmzTab: a java interface to the mzTab data standard.

Xu QW, Griss J, Wang R, Jones AR, Hermjakob H, Vizcaíno JA.

Proteomics. 2014 Jun;14(11):1328-32. doi: 10.1002/pmic.201300560. Epub 2014 Apr 29.

18.

multiplierz: an extensible API based desktop environment for proteomics data analysis.

Parikh JR, Askenazi M, Ficarro SB, Cashorali T, Webber JT, Blank NC, Zhang Y, Marto JA.

BMC Bioinformatics. 2009 Oct 29;10:364. doi: 10.1186/1471-2105-10-364.

19.

Extractor for ESI quadrupole TOF tandem MS data enabled for high throughput batch processing.

Boehm AM, Galvin RP, Sickmann A.

BMC Bioinformatics. 2004 Oct 26;5:162.

20.

A database application for pre-processing, storage and comparison of mass spectra derived from patients and controls.

Titulaer MK, Siccama I, Dekker LJ, van Rijswijk AL, Heeren RM, Sillevis Smitt PA, Luider TM.

BMC Bioinformatics. 2006 Sep 5;7:403.

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