Prince:BYU Lipidomics Team

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===Tandem Mass Spectrometry===
===Tandem Mass Spectrometry===
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Membrane lipids and tandem MS. [http://www.pnas.org/content/94/6/2339.full]
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Membrane lipids. [http://www.pnas.org/content/94/6/2339.full]
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Phospholipids and tandem MS. [http://onlinelibrary.wiley.com/doi/10.1002/mas.10061/full] [http://www.sciencedirect.com/science/article/pii/S1570023209001172]
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Phospholipids [http://onlinelibrary.wiley.com/doi/10.1002/mas.10061/full] [http://www.sciencedirect.com/science/article/pii/S1570023209001172]
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Sphingolipids and tandem MS. [http://www.sciencedirect.com/science/article/pii/S1044030599001506]
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Sphingolipids [http://www.sciencedirect.com/science/article/pii/S1044030599001506]
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Glycosphingolipids [http://www.sciencedirect.com/science/article/pii/S104403050000194X]
===Bioinformatics===
===Bioinformatics===

Revision as of 19:04, 22 July 2011

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Contents

Basic Protocol

  • Get sample from almost any source
  • Extraction (both methods use Folch reagent [2:1 chloroform:methanol])
    • use Kaluzne method
    • trying to implement Bligh & Dyer (gold standard)
    • MTBE Extraction [1]
  • Mass Spectrometry
    • ESI-Agilent TOF
    • Tandem MS-Q-Star (8-10am)
  • Analysis
    • Matlab (particular toolbox?) PCA analysis

Main analytes are phosphatidylcholine and phosphatidylethanolamine. Analytes in (-) mode would be phosphatidylserines and phosphatidylethanolamines (which are expected to have stronger signal in - mode). Typical number of analytes?

FAME-GC associated with Craig Thulin and UVU.

Literature

Background

Lipidomics and lipid profiling in metabolomics. [2]

Lipidomics: coming to grips with lipid diversity, Nature Reviews Molecular Cell Biology, 11, 593–598 (1 August 2010).

Membrane lipid composition. [3]

Lipid rafts. [4]

Mass Spectrometry

Practical essentials of ESI.* [5]

Solid tutorial review on mass spec "-omics."* [6]

General approaches to lipidomics. [7]

Recent advances (2011) in MS lipidomics. [8]

Advances is mass spectrometry lipidomics. [9]

Specific lipid classes and MS. [10]

Basics of ESI and ESI intrasource separation shotgun lipidomics.** [11]

Factors influencing ESI intrasource separation. [12]

  • Sample preparation for intrasource separation.** [13] [14]

Multiple precursor ion and neutral loss scanning with data-dependent acquisition. [15]

Top-down lipidomic strategy.** [16]

Top-down lipidomic analysis of blood plasma.* [17]

Quantitative shotgun yeast lipidomics. [18] [19]

Quantitative shotgun membrane lipidomics, including glycosphingolipids. [20]

LTQ Orbitrap shotgun lipidomics. [21]

Tandem Mass Spectrometry

Membrane lipids. [22]

Phospholipids [23] [24]

Sphingolipids [25]

Glycosphingolipids [26]

Bioinformatics

Informatics and computational strategies for the study of lipids. [27]

Computational lipidomics. [28]

Chemometrics for Metabonomics. [29] [30]

LipidXplorer: open-source lipid identification and quantification software. [31]

  • LipidXplorer wiki. [32]

PCA package. [33]

K-OPLS package. [34]

S-plot. [35]

Special Journal Issues on Lipidomics

Journal of Chromatography B, Volume 877, Issue 26. [36]

Prostaglandins and Other Lipid Mediators, Volume 77. [37]

European Journal of Lipid Science and Technology, Volume 111, Issue 1. [38]

Frontiers in Bioscience, Volume 12, January 2007.

Methods in Enzymology, Volume 432, 2007.

Signalling Lipids and Lipidomics

Sphingolipid signalling. [39]

Lipid mediators in health and disease. [40]

Lipid mediators for inflammation resolution. [41]

Eicosanoid lipidomics. [42]

Bioactive lipidomics. [43]

Lipid mediator informatics-lipidomics. [44]

Mediator lipidomics. [45]

LC/MS Lipidomics

HPLC/MS of complex lipidomes. [46]

UPLC/MS of complex lipidomes. [47]

Group Members

Current

  • Mary Blackburn
  • Mackay Merrill
  • Dean Flanders
  • Landon Weist
  • Rob Roden
  • Greg Jackson
  • Daniel Edmondson
  • Matthew Linford
  • Craig Thulin
  • Steven Wood
  • John Prince

Former or Associated

  • Jennifer MacDonald
  • Jonathan Lee
  • Vinod Chaudhary
  • Steven Herron

Relevant Publications

Error fetching PMID 19935646:
  1. Error fetching PMID 19935646: [P1]
    This has a great protocol for negative ion mode extraction and analysis on the Orbitrap.

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