Articles Using LipidXplorer

Selection of publications which utilized LipidXplorer

Click on a publication to see the used MFQL queries and mass spectrometer settings. The list is ordered by year.

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Khaliullina H, Bilgin M, Sampaio JL, Shevchenko A, Eaton S:Endocannabinoids are conserved inhibitors of the Hedgehog pathway PNAS 2015 Feb 2

Hebbar S, Schulz W D, Sauer U and Schwudke D :Laser Capture Microdissection Coupled with On-Column Extraction LC-MSn Enables Lipidomics of Fluorescently Labeled Drosophila Neurons Anal. Chem. 2014 May 12, 86(11)

Papan C, Penkov S, Herzog R, Thiele C, Kurzchalia T, Shevchenko A:Systematic screening for novel lipids by shotgun lipidomics. Anal. Chem. 2014 Jan 28, 86(5)

Gaessler J, Bornstein T D, Goel D, Bhalla V P, Lohmann T, Wolf T, Koch M, Qin Y, Licinio J, Wong M-L, Chavakis T, Xu A, Shevchenko A, Schuhmann K, Schwarz P E H, Patel A, Bornstein S R:Lipidomic profiling before and after Roux-en-Y gastric bypass in obese patients with diabetes The Pharmacogenomics Journal 2013 Dec 24

Herzog R, Schwudke D, Shevchenko A:UNIT 14.12 LipidXplorer: Software for Quantitative Shotgun Lipidomics Compatible with Multiple Mass Spectrometry Platforms Current Protocols in Bioinformatics 2013 Oct 15

Fernandez C, Sandin M, Sampaio J L, Almgren P, Narkiewicz K, Hoffmann M, Hedner T, Wahlstrand B, Simons K, Shevchenko A, James P, Melander O:Plasma Lipid Composition and Risk of Developing Cardiovascular Disease PLOS one 2013 Aug 15 DOI: 10.1371/journal.pone.0071846

Carvalho M, Sampaio JL, Palm W, Brankatschk M, Eaton S, Shevchenko A: Effects of diet and development on the Drosophila lipidome Molecular Systems Biology 2012 Jul 31. 8:600

Walser PJ, Ariotti N, Howes M, Ferguson C, Webb R, Schwudke D, Leneva N, Cho KJ, Cooper L, Rae J, Floetenmeyer M, Oorschot VM, Skoglund U, Simons K, Hancock JF, Parton RG. Constitutive formation of caveolae in a bacterium. Cell. 2012 Aug 17;150(4):752-63.

Estronca, LM; Silva, JC; Sampaio, JL; Shevchenko, A; Verkade, P; Vaz, AD; Vaz, WL; Vieira, OV Molecular etiology of atherogenesis - in vitro induction of lipidosis in macrophages with a new LDL model. PloS ONE 7: e34822.

Klose, C; Surma, MA; Gerl, MJ; Meyenhofer, F; Shevchenko, A; Simons, K. Flexibility of a eukaryotic lipidome - insights from yeast lipidomics. PloS ONE 7: e35063.

Kai Schuhmann, Reinaldo Almeida, Mark Baumert, Ronny Herzog, Stefan R. Bornstein, Andrej Shevchenko. Shotgun lipidomics on a LTQ Orbitrap mass spectrometer by successive switching between acquisition polarity modes JMS 2012 Jan 26. 47(1)

Ronny Herzog, Kai Schuhmann, Dominik Schwudke, Julio L. Sampaio, Stefan R. Bornstein, Michael Schroeder, Andrej Shevchenko. LipidXplorer: A Software for Consensual Cross-Platform Lipidomics PLoS ONE 7(1): e29851. doi:10.1371/journal.pone.0029851

Kai Schuhmann, Ronny Herzog, Dominik Schwudke, Wolfgang Metelmann-Strupat, Stefan R. Bornstein, and Andrej Shevchenko Bottom-up shotgun lipidomics by higher energy collisional dissociation on LTQ Orbitrap mass spectrometers. Analytical Chemistry 2011 83 (14), 5480-5487

Gerl MJ, Sampaio JL, Urban S, Kalvodova L, Verbavatz JM, Binnington B, Lindemann D, Lingwood CA, Shevchenko A, Schroeder C, Simons K. Quantitative analysis of the lipidomes of the influenza virus envelope and MDCK cell apical membrane. J Cell Biol. 2012 Jan 16. [Epub ahead of print]

Ayciriex S, Le Guédard M, Camougrand N, Velours G, Schoene M, Leone S, Wattelet-Boyer V, Dupuy JW, Shevchenko A, Schmitter JM, Lessire R, Bessoule JJ, Testet E. YPR139c/LOA1 encodes a novel lysophosphatidic acid acyltransferase associated with lipid droplets and involved in TAG homeostasis. Mol Biol Cell. 2012 Jan;23(2):233-246. Epub 2011 Nov 16.

Fernandez C, Schuhmann K, Herzog R, Fielding B, Frayn K, Shevchenko A, James P, Holm C, Ström K. Altered desaturation and elongation of fatty acids in hormone-sensitive lipase null mice. PLoS One. 2011;6(6):e21603. Epub 2011 Jun 29.

Herzog, R., Schwudke, D., Schuhmann, K., Sampaio, J.L., Bornstein, S.R., Schroeder, M., and Shevchenko, A. 2011. A novel informatics concept for high-throughput shotgun lipidomics based on the molecular fragmentation query language. Genome Biol 12(1): R8.

Penkov S, Mende F, Zagoriy V, Erkut C, Martin R, Pässler U, Schuhmann K, Schwudke D, Gruner M, Mäntler J, Reichert-Müller T, Shevchenko A, Knölker HJ, Kurzchalia TV. 2010. Maradolipids: diacyltrehalose glycolipids specific to dauer larva in Caenorhabditis elegans. Angew Chem Int Ed Engl. 49(49):9430-5.

Carvalho M, Schwudke D, Sampaio JL, Palm W, Riezman I, Dey G, Gupta GD, Mayor S, Riezman H, Shevchenko A, Kurzchalia TV, Eaton S.Survival strategies of a sterol auxotroph. Development. 2010 Nov;137(21):3675-85.

Graessler J, Schwudke D, Schwarz PE, Herzog R, Shevchenko A, Bornstein SR: Top-down lipidomics reveals ether lipid deficiency in blood plasma of hypertensive patients. PLoS One 2009, 4:e6261.

Raa H, Grimmer S, Schwudke D, Bergan J, Wälchli S, Skotland T, Shevchenko A, Sandvig K. Glycosphingolipid requirements for endosome-to-Golgi transport of Shiga toxin. Traffic. 2009 Jul;10(7):868-82. Epub 2009 May 6.

Saito K, Dubreuil V, Arai Y, Wilsch-Bräuninger M, Schwudke D, Saher G, Miyata T, Breier G, Thiele C, Shevchenko A, Nave KA, Huttner WB.Ablation of cholesterol biosynthesis in neural stem cells increases their VEGF expression and angiogenesis but causes neuron apoptosis. Proc Natl Acad Sci U S A. 2009 May 19;106(20):8350-5. Epub 2009 May 5.