Lipidomics database

More recently, a third omics field, lipidomics, was developed. Lipidomics was developed to attempt to provide a system in which to quantitatively profile all of the lipid molecules in a given species or in a tissue within that species (Han, 2011 Welti, 2011). Not surprisingly, a new nomenclature system has been developed to help to define and catalog the various lipids in the lipidome of each species. In this system, tocopherols and tocotrienols are part of the category called prenols (Table 11.1). Currently, the main database for lipidomics information in the USA is the LIPID-MAPS (2011) and its Prenol category contains the four known tocopherols (oc, (3, y, 5), four known tocotrienols (a, [3, y, 5), and a total of 1177 Prenols. Each of the eight individual tocopherols and tocotrienols are sometimes referred to as vitamers. 

Hla, T. Genomic insights into mediator lipidomics.. Prostaglandins Other Lipid Mediat. 2005 77 197-209. www.lipidlibrary.co.uk is a reference website with up-to-date information on the structure, function, and analysis of lipids. www.xpharm.com is a database containing pharmacology reference information. 

The mentioned data management systems are only first steps toward comprehensive lipid databases and global lipid networks. An example for such a data bank is LIPIDMAPS (http //www.lipidmaps.org), which covers structures and annotations of biologically relevant lipids (43). The structures originate from the core laboratories of the LIPIDMAPS consortium and their partners. In this database, users can search the LIPID MAPS proteome database using either text-based or structure-based search options. In addition to LIPIDMAPS, other databases in Europe (http //www.lipidomics.net) and Japan (http //www.lipidbank.jp) have been initiated. 

Sources for specific omics studies are also available. For instance, tools such as the RNA-Seq Atlas [17], Human Protein Atlas (HPA) [18], and the Human Metabolome Database (HMDB) [19] are useful for systemic genomic, proteomic, and metabolo-mics studies of human beings. LIPID Metabolites and Pathways Strategy (LIPID MAPS) [20] is a lipidomics gateway, an integrative platform for studies in lipid biology. More resources and updated links can be found at the Biomarkers portal (see Table 1). 

The revolutionary development of chemical and functional omics approaches (genomics, proteomics, lipidomics, glycomics, etc.) has contributed to the emergence of database management, high-throughput... 

Overall, the METLIN database allows researchers to readily search and characterize metabolites through their chemical and/or physical features such as accurate mass, and single and multiple fragments including neutral-loss fragments. These capabilities of the database greatly facilitate the value of their metabolomics MS and MS/MS data and expedite the identification process. METLIN is one of the most used databases in metabolomics including lipidomics. 

S LipidSearch LipidSearch is the commercial software (Thermo Fisher Scientific) developed jointly by Prof. Ryo Taguchi and MKI (Tokyo, Japan). It is a powerful new tool for automatic identification and relative quantification of cellular lipid species from a large amount of mass spectrometric data obtained from both LC-MS and shotgun lipidomics approaches. A lipid database containing... 

Sud M, Fahy E, Cotter D, et al. LMSD LIPID MAPS structure database. Nucleic Acids Res. 2007 35 D527-D532. Tajima Y, Ishikawa M, Maekawa K, et al. Lipidomic analysis of brain tissues and plasma in a mouse model expressing mutated human amyloid precursor protein/tau for Alzheimer s disease. Lipids Health Dis. 2013 12 68. Woods AS, Jackson SN. Brain tissue lipidomics direct probing using matrix-assisted laser desorption/ ionization mass spectrometry. AAPS J. 2006 8(2) E391-395. 

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