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Items: 1 to 20 of 94

1.

LipidXplorer: a software for consensual cross-platform lipidomics.

Herzog R, Schuhmann K, Schwudke D, Sampaio JL, Bornstein SR, Schroeder M, Shevchenko A.

PLoS One. 2012;7(1):e29851. doi: 10.1371/journal.pone.0029851. Epub 2012 Jan 17.

2.

LipidXplorer: Software for Quantitative Shotgun Lipidomics Compatible with Multiple Mass Spectrometry Platforms.

Herzog R, Schwudke D, Shevchenko A.

Curr Protoc Bioinformatics. 2013 Oct 15;43:14.12.1-30. doi: 10.1002/0471250953.bi1412s43.

PMID:
26270171
3.

A novel informatics concept for high-throughput shotgun lipidomics based on the molecular fragmentation query language.

Herzog R, Schwudke D, Schuhmann K, Sampaio JL, Bornstein SR, Schroeder M, Shevchenko A.

Genome Biol. 2011;12(1):R8. doi: 10.1186/gb-2011-12-1-r8. Epub 2011 Jan 19.

4.

Bottom-up shotgun lipidomics by higher energy collisional dissociation on LTQ Orbitrap mass spectrometers.

Schuhmann K, Herzog R, Schwudke D, Metelmann-Strupat W, Bornstein SR, Shevchenko A.

Anal Chem. 2011 Jul 15;83(14):5480-7. doi: 10.1021/ac102505f. Epub 2011 Jun 27.

PMID:
21634439
5.

Shotgun lipidomics on high resolution mass spectrometers.

Schwudke D, Schuhmann K, Herzog R, Bornstein SR, Shevchenko A.

Cold Spring Harb Perspect Biol. 2011 Sep 1;3(9):a004614. doi: 10.1101/cshperspect.a004614. Review.

6.

Systematic screening for novel lipids by shotgun lipidomics.

Papan C, Penkov S, Herzog R, Thiele C, Kurzchalia T, Shevchenko A.

Anal Chem. 2014 Mar 4;86(5):2703-10. doi: 10.1021/ac404083u. Epub 2014 Feb 11.

PMID:
24471557
7.

Lipid-Pro: a computational lipid identification solution for untargeted lipidomics on data-independent acquisition tandem mass spectrometry platforms.

Ahmed Z, Mayr M, Zeeshan S, Dandekar T, Mueller MJ, Fekete A.

Bioinformatics. 2015 Apr 1;31(7):1150-3. doi: 10.1093/bioinformatics/btu796. Epub 2014 Nov 29.

PMID:
25433698
8.

Top-down lipidomic screens by multivariate analysis of high-resolution survey mass spectra.

Schwudke D, Hannich JT, Surendranath V, Grimard V, Moehring T, Burton L, Kurzchalia T, Shevchenko A.

Anal Chem. 2007 Jun 1;79(11):4083-93. Epub 2007 May 3.

PMID:
17474710
9.

Automated lipid identification and quantification by multidimensional mass spectrometry-based shotgun lipidomics.

Yang K, Cheng H, Gross RW, Han X.

Anal Chem. 2009 Jun 1;81(11):4356-68. doi: 10.1021/ac900241u.

10.

High-throughput shotgun lipidomics by quadrupole time-of-flight mass spectrometry.

Ståhlman M, Ejsing CS, Tarasov K, Perman J, Borén J, Ekroos K.

J Chromatogr B Analyt Technol Biomed Life Sci. 2009 Sep 15;877(26):2664-72. doi: 10.1016/j.jchromb.2009.02.037. Epub 2009 Feb 24. Review.

PMID:
19286428
11.

Shotgun lipidomics by tandem mass spectrometry under data-dependent acquisition control.

Schwudke D, Liebisch G, Herzog R, Schmitz G, Shevchenko A.

Methods Enzymol. 2007;433:175-91.

PMID:
17954235
12.

Instrument-independent software tools for the analysis of MS-MS and LC-MS lipidomics data.

Haimi P, Chaithanya K, Kainu V, Hermansson M, Somerharju P.

Methods Mol Biol. 2009;580:285-94. doi: 10.1007/978-1-60761-325-1_16.

PMID:
19784606
13.

Electrospray ionization tandem mass spectrometry (ESI-MS/MS)-based shotgun lipidomics.

Isaac G.

Methods Mol Biol. 2011;708:259-75. doi: 10.1007/978-1-61737-985-7_16.

PMID:
21207296
14.

Analysis of lipid experiments (ALEX): a software framework for analysis of high-resolution shotgun lipidomics data.

Husen P, Tarasov K, Katafiasz M, Sokol E, Vogt J, Baumgart J, Nitsch R, Ekroos K, Ejsing CS.

PLoS One. 2013 Nov 7;8(11):e79736. doi: 10.1371/journal.pone.0079736. eCollection 2013. Erratum in: PLoS One. 2014;9(4):e93351.

15.

A comprehensive method for lipid profiling by liquid chromatography-ion cyclotron resonance mass spectrometry.

Fauland A, Köfeler H, Trötzmüller M, Knopf A, Hartler J, Eberl A, Chitraju C, Lankmayr E, Spener F.

J Lipid Res. 2011 Dec;52(12):2314-22. doi: 10.1194/jlr.D016550. Epub 2011 Sep 29.

16.

Supercritical fluid chromatography/Orbitrap mass spectrometry based lipidomics platform coupled with automated lipid identification software for accurate lipid profiling.

Yamada T, Uchikata T, Sakamoto S, Yokoi Y, Nishiumi S, Yoshida M, Fukusaki E, Bamba T.

J Chromatogr A. 2013 Aug 2;1301:237-42. doi: 10.1016/j.chroma.2013.05.057. Epub 2013 Jun 1.

PMID:
23809844
17.

Accurate mass searching of individual lipid species candidates from high-resolution mass spectra for shotgun lipidomics.

Wang M, Huang Y, Han X.

Rapid Commun Mass Spectrom. 2014 Oct 30;28(20):2201-10. doi: 10.1002/rcm.7015.

18.

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.

19.

In silico identification software (ISIS): a machine learning approach to tandem mass spectral identification of lipids.

Kangas LJ, Metz TO, Isaac G, Schrom BT, Ginovska-Pangovska B, Wang L, Tan L, Lewis RR, Miller JH.

Bioinformatics. 2012 Jul 1;28(13):1705-13. doi: 10.1093/bioinformatics/bts194. Epub 2012 May 15.

20.

mMass as a software tool for the annotation of cyclic peptide tandem mass spectra.

Niedermeyer TH, Strohalm M.

PLoS One. 2012;7(9):e44913. doi: 10.1371/journal.pone.0044913. Epub 2012 Sep 13.

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