Prince:BYU Lipidomics Team

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
(Mass Spectrometry)
(Literature)
Line 20: Line 20:
==Literature==
==Literature==
 +
 +
===Lipids===
 +
 +
Lipidomics and lipid profiling in metabolomics. [http://ovidsp.tx.ovid.com/sp-3.4.1b/ovidweb.cgi?&S=ONCGFPGADMDDHPLMNCBLLEJCFILIAA00&Link+Set=S.sh.15.16.21.26|14|sl_10]
 +
 +
"Lipidomics: coming to grips with lipid diversity," ''Nature Reviews Molecular Cell Biology'', 11, 593–598 (1 August 2010)
===Mass Spectrometry===
===Mass Spectrometry===

Revision as of 17:58, 27 June 2011

Image:Prince lab logo.png

Home        Lab Members         Research         Publications         Internal         Mass Spec         Contact        


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

Lipids

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)

Mass Spectrometry

Practical essentials of ESI.* [3]

Solid tutorial review on mass spec "-omics."* [4]

General approaches to lipidomics. [5]

Recent advances (2011) in MS lipidomics. [6]

Basics of ESI and intrasource separation shotgun lipidomics.** [7]

  • Sample preparation for intrasource separation.** [8] [9]

Multiple precursor ion and neutral loss scanning with data-dependent acquisition. [10]

Top-down lipidomic strategy.** [11]

Top-down lipidomic analysis of blood plasma.* [12]

Yeast quantitative shotgun lipidomics. [13] [14]

Bioinformatics

Chemometrics. [15] [16]

Molecular fragmentation query language. [17]

PCA package. [18]

K-OPLS package. [19]

S-plot. [20]

Special Journal Issues on Lipidomics

Journal of Chromatography B, Volume 877, Issue 26, [21]

Prostaglandins and Other Lipid Mediators, Volume 77 [22]

European Journal of Lipid Science and Technology, Volume 111, Issue 1 [23]

Frontiers in Bioscience, Volume 12, January 2007

Methods in Enzymology, Volume 432, 2007

Signalling Lipids and Lipidomics

Sphingolipid signalling. [24]

Lipid mediators in health and disease. [25]

Lipid mediators for inflammation resolution. [26]

Eicosanoid lipidomics. [27]

Bioactive lipidomics. [28]

Lipid mediator informatics-lipidomics. [29]

Mediator lipidomics. [30]

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.

Personal tools