Research library - LIPID MAPS Publications: 2007

Key Lipidomics Publications

Special issues, with significant contributions from members of the LIPID MAPS Consortium

• Lipid Biochemistry, Metabolism, and Signaling Editorial

  Edited by H. Alex Brown and Lawrence J. Marnett. Chemical Reviews, 111, 5817-6512 (2011)

• Lipidomics and Imaging Mass Spectrometry

  Edited by Alfred H. Merrill and Robert C. Murphy. BBA - Molecular and Cellular Biology of Lipids, 1811, 635-1000 (2011)

• Lipidomics and Bioactive Lipids: Mass-Spectrometry-Based Lipid Analysis

  Edited by H. Alex Brown. Methods in Enzymology, 432, 1-387 (2007)
  - Download all LIPID MAPS Chapters (PDF).

Peer-reviewed journal articles

• A community-driven global reconstruction of human metabolism.

  Nat Biotechnol. 2013 May;31(5):419-25. doi: 10.1038/nbt.2488. Epub 2013 Mar 3.

• Macrophages, Inflammation, and Insulin Resistance

  Jerrold M. Olefsky, Christopher K. Glass Annual Review of Physiology, 72 219-246 (2010)

more key publications

Year published: 2003 | 2004 | 2005 | 2006 | 2007 | 2008 | 2009 | 2010 | 2011 | 2012 | 2013 | 2014 | 2015 | 2016 | 2017

• Biochemical analysis of phospholipase D.

  Brown HA, Henage LG, Preininger AM, Xiang Y, and Exton JH

  Methods in Enzymology, Academic Press 434, 49-87 (2007)

  PMID: 17954242 [10.1016/S0076-6879(07)34004-4]

• TLR-4 and sustained calcium agonists synergistically produce eicosanoids independent of protein synthesis in RAW264.7 cells.

  Buczynski M, Stephens D, Bowers-Gentry R, Grkovich A, Deems R and Dennis E.

  The Journal of Biological Chemistry 282, 22834-22847 (2007)

  PMID:17535806 [doi:10.1074/jbc.M701831200]

• A Laboratory information management system for high throughput experimental lipidomics: Minimal information required for the analysis of lipidomics experiments (MIALE).

  Byrnes R, Fahy E and Subramaniam S.

  Journal of the Association for Laboratory Automation 12, 230-238 (2007)

  [doi:10.1016/j.jala.2007.04.002]

• Quantification of diacylglycerol species from cellular extracts by electrospray ionization mass spectrometry using a linear regression algorithm.

  Callender H, Forrester J, Ivanova P, Preininger A, Milne S and Brown H.

  Analytical Chemistry 79, 263-272 (2007)

  PMID: 17194150 [doi:10.1021/ac061083q]

• Detection and quantitation of eicosanoids via high performance liquid chromatography-electrospray ionization-mass spectrometry.

  Deems R, Buczynski M, Bowers-Gentry R, Harkewicz R and Dennis E.

  Methods in Enzymology 432, 59-82 (2007)

  PMID: 17954213 [doi:10.1016/S0076-6879(07)32003-X]

• Bioinformatics of Lipids

  Fahy, E.

  In Metabolomics, Metabonomics and Metabolite Profiling. Griffiths, W. ed., RSC Publishing, London, 195-209. Biomolecular Science series. (2007)

  [10.1039/9781847558107]

• Bioinformatics for Lipidomics.

  Fahy E, Cotter D, Byrnes R, Sud M, Maer A, Li J, Nadeau D, Zhou Y, and Subramaniam S.

  Methods in Enzymology 432, 247-273 (2007)

  PMID: 17954221 [10.1016/S0076-6879(07)32011]

• LIPID MAPS online tools for lipid research.

  Fahy E, Sud M, Cotter D and Subramaniam S.

  Nucleic Acids Research 35, W606-12 (2007)

  PMID: 17584797 [doi:10.1093/nar/gkm324]

• Sphingomyelinase restricts the lateral diffusion of CD4 and inhibits human immunodeficiency virus fusion.

  Finnegan C, Rawat S, Cho E, Guiffre D, Lockett S, Merrill JA and Blumenthal R

  Journal of Virology 81, 5294-5304 (2007)

  PMID: 17344303 [doi:10.1128/JVI.02553-06]

• Electrospray mass spectrometry of human hair wax esters

  Fitzgerald M, Murphy RC

  Journal of Lipid Research 48, 1231-46 (2007)

  PMID: 17277382 [10.1194/jlr.D700002-JLR200]

• Analysis of ubiquinones, dolichols and dolichol diphosphate-oligosaccharides by liquid chromatography-electrospray ionization mass spectrometry.

  Garrett, TA, Guan, Z, and Raetz, CR.

  Methods in Enzymology, Academic Press 432, 117-142 (2007)

  PMID: 17954215 [10.1016/S0076-6879(07)32005-3]

• Quantification of cardiolipin by liquid chromatography-electrospray ionization mass spectrometry.

  Garrett, TA, Kordestani, R, and Raetz, CR

  Methods in Enzymology, Academic Press 433, 213-230 (2007)

  PMID: 17954237 [10.1016/S0076-6879(07)33012-7]

• Parallel SUMOylation-dependent pathways mediate gene- and signal-specific transrepression by LXRs and PPARgamma.

  Ghisletti S, Huang W, Ogawa S, Pascual G, Lin M, Willson T, Rosenfeld M and Glass C.

  Molecular Cell 25, 57-70 (2007)

  PMID: 17218271 [doi:10.1016/j.molcel.2006.11.022]

• Identification of N-acylphosphatidylserine molecules in eukaryotic cells.

  Guan Z, Li S, Smith D, Shaw W and Raetz C.

  Biochemistry 46, 14500-14513 (2007)

  PMID: 18031065 [doi:10.1021/bi701907g]

• Sublimation as a method of matrix application for mass spectrometric imaging.

  Hankin J, Barkley R and Murphy R.

  Journal of the American Society for Mass Spectrometry 18, 1646-1652 (2007)

  PMID: 17659880 [doi:10.1016/j.jasms.2007.06.010]

• Arachidonate-derived dihomoprostaglandin production observed in endotoxin-stimulated macrophage-like cells.

  Harkewicz R, Fahy E, Andreyev A and Dennis E.

  The Journal of Biological Chemistry 282, 2899-2910 (2007)

  PMID: 17135246 [doi:10.1074/jbc.M610067200]

• Macrophage PPAR gamma is required for normal skeletal muscle and hepatic insulin sensitivity and full antidiabetic effects of thiazolidinediones.

  Hevener A, Olefsky J, Reichart D, Nguyen M, Bandyopadyhay G, Leung H, Watt M, Benner C, Febbraio M, Nguyen A, Folian B, Subramaniam S, Gonzalez F, Glass C and Ricote M.

  The Journal of Clinical Investigation 117, 1658-1669 (2007)

  PMID: 17525798 [doi:10.1172/JCI31561]

• Glycerophospholipid identification and quantitation by electrospray mass spectrometry

  Ivanova PT, Milne SB, Byrne MO, Xiang Y, Brown HA

  Methods in Enzymology, Academic Press 432, 21-57 (2007)

  PMID: 17954212 [10.1016/S0076-6879(07)32002-8]

• N-(3-Hydroxyhexanoyl)-L-Homoserine Lactone Is the Biologically Relevant Quormone That Regulates the phz Operon of Pseudomonas chlororaphis Strain 30-84

  Khan SR, Herman J, Krank J, Serkova NJ, Churchill MEA, Suga H and Farrand SK.

  Applied Environmental Microbiology 73, 7443-55 (2007)

  PMID: 17921283] [10.1128/AEM.01354-07]

• Qualitative analysis and quantitative assessment of changes in neutral glycerol lipid molecular species within cells.

  Krank J, Murphy RC, Barkley RM, Duchoslav E, and McAnoy A.

  Methods in Enzymology, Academic Press 432, 1-20 (2007)

  PMID: 17954211 [10.1016/S0076-6879(07)32001-6]

• Ceramide kinase uses ceramide provided by ceramide transport protein: localization to organelles of eicosanoid synthesis.

  Lamour N, Stahelin R, Wijesinghe D, Maceyka M, Wang E, Allegood J, Merrill JA, Cho W and Chalfant C.

  Journal of Lipid Research 48, 1293-1304 (2007)

  PMID: 17392267 [doi:10.1194/jlr.M700083-JLR200]

• Systems Biology of Macrophages.

  Maurya MR, Benner C, Pradervand S, Glass C, and Subramaniam S

  In Current Topics in Innate Immunity, Ed. J.D. Lambris. 62-79. Springer, New York (2007)

• A kinetic model for calcium dynamics in RAW 264.7 cells: 1. mechanisms, parameters, and subpopulational variability.

  Maurya MR and Subramaniam S.

  Biophysical Journal 93, 709-728 (2007)

  PMID: 17483174 [doi:10.1529/biophysj.106.097469]

• A kinetic model for calcium dynamics in RAW 264.7 cells: 2. knockdown response and long-term response.

  Maurya MR, Subramaniam S

  Biophysical Journal J 93, 729-40 (2007)

  PMID: 17483189 [10.1529/biophysj.106.097501]

• Extraction and analysis of sterols in biological matrices by high-performance liquid chromatography electrospray ionization mass spectrometry.

  McDonald JG, Thompson B, McCrum EC, and Russell DW.

  Methods in Enzymology, Academic Press 432, 143-168 (2007)

  PMID: 17954216 [10.1016/S0076-6879(07)32006-5]

• (Glyco)sphingolipidology: an amazing challenge and opportunity for systems biology.

  Merrill JA, Wang M, Park M and Sullards M.

  Trends in Biochemical Sciences 32, 457-468 (2007)

  PMID: 17928229 [doi:10.1016/j.tibs.2007.09.004]

• Quantitation and standardization of lipid internal standards for mass spectroscopy.

  Moore JD, Caufield WV, and Shaw W

  Methods in Enzymology, Academic Press 432, 351-367 (2007)

  PMID: 17954224 [10.1016/S0076-6879(07)32014-4]

• Cytoplasmic remodeling of erythrocyte raft lipids during infection by the human malaria parasite Plasmodium falciparum.

  Murphy S, Fernandez-Pol S, Chung P, Murthy S, Milne S, Salomao M, Brown H, Lomasney J, Mohandas N and Haldar K.

  Blood 110, 2132-2139 (2007)

  PMID: 17526861 [doi:10.1182/blood-2007-04-083873]

• Neutral lipidomics and mass spectrometry

  Murphy, R. C., Fitzgerald, M., and Barkley, R. M.

in Metabolomics, Metabonomics and Metabolite Profiling. Griffiths, W. ed., RSC Publishing, London, 195-209. Biomolecular Science series. (2007)

• Detection of the abundance of diacylglycerol and triacylglycerol molecular species in cells using neutral loss mass spectrometry.

  Murphy R, James P, McAnoy A, Krank J, Duchoslav E and Barkley R

  Analytical Biochemistry 366, 59-70 (2007)

  PMID: 17442253 [doi:10.1016/j.ab.2007.03.012]

• Hypoxia stimulates degradation of 3-hydroxy-3-methylglutaryl-coenzyme A reductase through accumulation of lanosterol and hypoxia-inducible factor-mediated induction of insigs

  Nguyen AD, McDonald JG, Bruick RK, DeBose-Boyd RA

  Journal of Biological Chemistry 282, 27436-46 (2007)

  PMID: 17635920 [10.1074/jbc.M704976200

• Ceramide transfer protein function is essential for normal oxidative stress response and lifespan.

  Rao R, Yuan C, Allegood J, Rawat S, Edwards M, Wang X, Merrill JA, Acharya U and Acharya J.

  Proceedings of the National Academy of Sciences 104, 11364-11369 (2007)

  PMID: 17592126 [doi:10.1073/pnas.0705049104]

• Lipid profiling reveals glycerophospholipid remodeling in zymosan-stimulated macrophages.

  Rouzer C, Ivanova P, Byrne M, Brown H and Marnett L.

  Biochemistry 46, 6026-6042 (2007)

  PMID: 17458939 [doi:10.1021/bi0621617]

• The lipid maps initiative in lipidomics.

  Schmelzer K, Fahy E, Subramaniam S, and Dennis EA

  Methods in Enzymology, Academic Press 432, 169-181 (2007)

  PMID: 17954217 [10.1016/S0076-6879(07)32007-7]

• The lipid lysyl-phosphatidylglycerol is present in membranes of Rhizobium tropici CIAT899 and confers increased resistance to polymyxin B under acidic growth conditions

  Sohlenkamp C, Galindo-Lagunas KA, Guan Z, Vinuesa P, Robinson S, Thomas-Oates J, Raetz CR, Geiger O

  Mol Plant Microbe Interact 20 1421-30 (2007)

  PMID: 17977153 [10.1094/MPMI-20-11-1421]

• Loss of cardiac tetralinoleoyl cardiolipin in human and experimental heart failure.

  Sparagna G, Chicco A, Murphy R, Bristow M, Johnson C, Rees M, Maxey M, McCune S and Moore R.

  Journal of Lipid Research 48, 1559-1570 (2007)

  PMID: 17426348 [doi:10.1194/jlr.M600551-JLR200]

• LMSD: LIPID MAPS structure database

  Sud M, Fahy E, Cotter D, Brown A, Dennis EA, Glass CK, Merrill AH, Jr., Murphy RC, Raetz CR, Russell DW, Subramaniam S

  Nucleic Acids Research 35, D527-32 (2007)

  PMID: 17098933 [10.1093/nar/gkl838]

• Structure-specific, quantitative methods for analysis of sphingolipids by liquid-chromatography tandem mass spectrometry: "Inside-out" sphingolipidomics.

  Sullards MC, Allegood JC, Kelly S, Wang E, Haynes CA, Park H, Chen Y, Shaner R, and Merrill AH Jr.

  Methods in Enzymology, Academic Press 432, 83-115 (2007)

  PMID: 17954214 [10.1016/S0076-6879(07)32004-1]

• FcepsilonRI and Thy-1 domains have unique protein and lipid compositions.

  Surviladze Z, Harrison K, Murphy R and Wilson B.

  Journal of Lipid Research 48, 1325-1335 (2007)

  PMID: 17387221 [doi:10.1194/jlr.M600485-JLR200]

• Elucidation of double bond position in unsaturated lipids by ozone electrospray ionization mass spectrometry.

  Thomas M, Mitchell T, Harman D, Deeley J, Murphy R and Blanksby S.

  Analytical Chemistry 79, 5013-5022 (2007)

  PMID: 17547368 [doi:10.1021/ac0702185]

• Steroidogenic factor-1 is a sphingolipid binding protein.

  Urs A, Dammer E, Kelly S, Wang E, Merrill JA and Sewer M.

  Molecular and Cellular Endocrinology 265, 174-178 (2007)

  PMID: 17196738 [doi:10.1016/j.mce.2006.12.016]

• Attenuated virulence of a Francisella mutant lacking the lipid A 4'-phosphatase.

  Wang X, Ribeiro A, Guan Z, Abraham S and Raetz C.

  Proceedings of the National Academy of Sciences 104, 4136-4141 (2007)

  PMID: 17360489 [doi:10.1073/pnas.0611606104]

• Identification and quantification of dolichol and dolichoic acid in neuromelanin from substantia nigra of the human brain.

  Ward W, Guan Z, Zucca F, Fariello R, Kordestani R, Zecca L, Raetz C and Simon J.

  Journal of Lipid Research 48, 1457-1462 (2007)

  PMID: 17446624 [doi:10.1194/jlr.C700008-JLR200]

• An undecaprenyl phosphate-aminoarabinose flippase required for polymyxin resistance in Escherichia coli.

  Yan A, Guan Z and Raetz C.

  The Journal of Biological Chemistry 282, 36077-36089 (2007)

  [doi:10.1074/jbc.M706172200]