Literature DB >> 21704189

Lipid classification, structures and tools.

Eoin Fahy1, Dawn Cotter, Manish Sud, Shankar Subramaniam.   

Abstract

The study of lipids has developed into a research field of increasing importance as their multiple biological roles in cell biology, physiology and pathology are becoming better understood. The Lipid Metabolites and Pathways Strategy (LIPID MAPS) consortium is actively involved in an integrated approach for the detection, quantitation and pathway reconstruction of lipids and related genes and proteins at a systems-biology level. A key component of this approach is a bioinformatics infrastructure involving a clearly defined classification of lipids, a state-of-the-art database system for molecular species and experimental data and a suite of user-friendly tools to assist lipidomics researchers. Herein, we discuss a number of recent developments by the LIPID MAPS bioinformatics core in pursuit of these objectives. Copyright Â
© 2011 Elsevier B.V. All rights reserved.

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Year:  2011        PMID: 21704189      PMCID: PMC3995129          DOI: 10.1016/j.bbalip.2011.06.009

Source DB:  PubMed          Journal:  Biochim Biophys Acta        ISSN: 0006-3002


  26 in total

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Authors:  Xianlin Han; Richard W Gross
Journal:  Mass Spectrom Rev       Date:  2005 May-Jun       Impact factor: 10.946

2.  Automated identification and quantification of glycerophospholipid molecular species by multiple precursor ion scanning.

Authors:  Christer S Ejsing; Eva Duchoslav; Julio Sampaio; Kai Simons; Ron Bonner; Christoph Thiele; Kim Ekroos; Andrej Shevchenko
Journal:  Anal Chem       Date:  2006-09-01       Impact factor: 6.986

3.  Lipidomics reveals a remarkable diversity of lipids in human plasma.

Authors:  Oswald Quehenberger; Aaron M Armando; Alex H Brown; Stephen B Milne; David S Myers; Alfred H Merrill; Sibali Bandyopadhyay; Kristin N Jones; Samuel Kelly; Rebecca L Shaner; Cameron M Sullards; Elaine Wang; Robert C Murphy; Robert M Barkley; Thomas J Leiker; Christian R H Raetz; Ziqiang Guan; Gregory M Laird; David A Six; David W Russell; Jeffrey G McDonald; Shankar Subramaniam; Eoin Fahy; Edward A Dennis
Journal:  J Lipid Res       Date:  2010-07-29       Impact factor: 5.922

Review 4.  Update of the LIPID MAPS comprehensive classification system for lipids.

Authors:  Eoin Fahy; Shankar Subramaniam; Robert C Murphy; Masahiro Nishijima; Christian R H Raetz; Takao Shimizu; Friedrich Spener; Gerrit van Meer; Michael J O Wakelam; Edward A Dennis
Journal:  J Lipid Res       Date:  2008-12-19       Impact factor: 5.922

5.  Algorithm for processing raw mass spectrometric data to identify and quantitate complex lipid molecular species in mixtures by data-dependent scanning and fragment ion database searching.

Authors:  Haowei Song; Fong-Fu Hsu; Jack Ladenson; John Turk
Journal:  J Am Soc Mass Spectrom       Date:  2007-07-29       Impact factor: 3.109

Review 6.  Algorithms for automatic processing of data from mass spectrometric analyses of lipids.

Authors:  Haowei Song; Jack Ladenson; John Turk
Journal:  J Chromatogr B Analyt Technol Biomed Life Sci       Date:  2008-12-25       Impact factor: 3.205

7.  LMPD: LIPID MAPS proteome database.

Authors:  Dawn Cotter; Andreia Maer; Chittibabu Guda; Brian Saunders; Shankar Subramaniam
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

8.  LMSD: LIPID MAPS structure database.

Authors:  Manish Sud; Eoin Fahy; Dawn Cotter; Alex Brown; Edward A Dennis; Christopher K Glass; Alfred H Merrill; Robert C Murphy; Christian R H Raetz; David W Russell; Shankar Subramaniam
Journal:  Nucleic Acids Res       Date:  2006-11-10       Impact factor: 16.971

9.  Processing methods for differential analysis of LC/MS profile data.

Authors:  Mikko Katajamaa; Matej Oresic
Journal:  BMC Bioinformatics       Date:  2005-07-18       Impact factor: 3.169

10.  InChI, the IUPAC International Chemical Identifier.

Authors:  Stephen R Heller; Alan McNaught; Igor Pletnev; Stephen Stein; Dmitrii Tchekhovskoi
Journal:  J Cheminform       Date:  2015-05-30       Impact factor: 5.514

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  112 in total

1.  Emerging roles for specific fatty acids in developmental processes.

Authors:  Tracy L Vrablik; Jennifer L Watts
Journal:  Genes Dev       Date:  2012-04-01       Impact factor: 11.361

2.  Phospholipidomic Studies in Human Cornea From Climatic Droplet Keratopathy.

Authors:  Maria Fernanda Suarez; Maria Carmen Piqueras; Leandro Correa; Evangelina Esposito; Maria Fernanda Barros; Sanjoy K Bhattacharya; Julio A Urrets-Zavalia; Horacio M Serra
Journal:  J Cell Biochem       Date:  2017-05-23       Impact factor: 4.429

3.  Crystal structure of 3-hydroxybenzoate 6-hydroxylase uncovers lipid-assisted flavoprotein strategy for regioselective aromatic hydroxylation.

Authors:  Stefania Montersino; Roberto Orru; Arjan Barendregt; Adrie H Westphal; Esther van Duijn; Andrea Mattevi; Willem J H van Berkel
Journal:  J Biol Chem       Date:  2013-07-17       Impact factor: 5.157

4.  Lipidomics technologies at the end of the first decade and the beginning of the next.

Authors:  Alfred H Merrill; Edward A Dennis; Jeffrey G McDonald; Eoin Fahy
Journal:  Adv Nutr       Date:  2013-09-01       Impact factor: 8.701

5.  Rapid and comprehensive 'shotgun' lipidome profiling of colorectal cancer cell derived exosomes.

Authors:  Todd A Lydic; Steven Townsend; Christopher G Adda; Christine Collins; Suresh Mathivanan; Gavin E Reid
Journal:  Methods       Date:  2015-04-20       Impact factor: 3.608

6.  Many InChIs and quite some feat.

Authors:  Wendy A Warr
Journal:  J Comput Aided Mol Des       Date:  2015-06-17       Impact factor: 3.686

7.  Ozone-induced dissociation on a traveling wave high-resolution mass spectrometer for determination of double-bond position in lipids.

Authors:  Ngoc Vu; Jeffery Brown; Kevin Giles; Qibin Zhang
Journal:  Rapid Commun Mass Spectrom       Date:  2017-09-15       Impact factor: 2.419

Review 8.  Form(ul)ation of adipocytes by lipids.

Authors:  Kfir Lapid; Jonathan M Graff
Journal:  Adipocyte       Date:  2017-03-01       Impact factor: 4.534

9.  Plant Lipid Databases.

Authors:  Peter Dörmann
Journal:  Methods Mol Biol       Date:  2021

10.  Targeted Analysis of the Plant Lipidome by UPLC-NanoESI-MS/MS.

Authors:  Cornelia Herrfurth; Yi-Tse Liu; Ivo Feussner
Journal:  Methods Mol Biol       Date:  2021
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