Prince:BYU Lipidomics Team

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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

Mass Spectrometry

Practical essentials of ESI.* [2]

Solid tutorial review on mass spec "-omics."* [3]

Recent advances (2011) in MS lipidomics. [4]

General approaches to lipidomics. [5]

Basics of ESI and intrasource separation shotgun lipidomics.** [6]

  • Sample preparation for intrasource separation.** [7] [8]

Automated Multidimensional Mass Spectrometry-based Shotgun Lipidomics. [9]

Top-down lipidomic strategy.** [10]

Top-down lipidomic analysis of blood plasma.* [11]

Yeast quantitative shotgun lipidomics. [12] [13]

Bioinformatics

Chemometrics. [14] [15]

Molecular fragmentation query language. [16]

PCA package. [17]

K-OPLS package. [18]

S-plot. [19]

Special Journal Issues on Lipidomics

Journal of Chromatography B, Volume 877, Issue 26, [20]

Prostaglandins and Other Lipid Mediators, Volume 77 [21]

European Journal of Lipid Science and Technology, Volume 111, Issue 1 [22]

Frontiers in Bioscience, Volume 12, January 2007

Methods in Enzymology, Volume 432, 2007

Signalling Lipids and Lipidomics

Sphingolipid signalling. [23]

Lipid mediators in health and disease. [24]

Lipid mediators for inflammation resolution. [25]

Eicosanoid lipidomics. [26]

Bioactive lipidomics. [27]

Lipid mediator informatics-lipidomics. [28]

Mediator lipidomics. [29]

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

  1. Dang L, White DW, Gross S, Bennett BD, Bittinger MA, Driggers EM, Fantin VR, Jang HG, Jin S, Keenan MC, Marks KM, Prins RM, Ward PS, Yen KE, Liau LM, Rabinowitz JD, Cantley LC, Thompson CB, Vander Heiden MG, and Su SM. . pmid:19935646. PubMed HubMed [P1]
    This has a great protocol for negative ion mode extraction and analysis on the Orbitrap.

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