Nucleic Acids Research Advance Access published online on November 10, 2006
Nucleic Acids Research, doi:10.1093/nar/gkl838
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LMSD: LIPID MAPS structure database
1 LIPID MAPS Bioinformatics Core, San Diego Supercomputer Center San Diego, La Jolla, CA 92093, USA 2 Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA 92093, USA 3 Department of Pharmacology, University of California San Diego, La Jolla, CA 92093, USA 4 Department of Cellular and Molecular Medicine, University of California San Diego, La Jolla, CA 92093, USA 5 Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA 6 Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA 92093, USA 7 Department of Pharmacology, Vanderbilt University Medical Center Nashville, TN 37232, USA 8 School of Biology, Georgia Institute of Technology Atlanta, GA 30332, USA 9 University of Colorado Health Sciences Center, Aurora CO 80045, USA 10 Department of Biochemistry, Duke University Medical Center Durham, NC 27710, USA 11 Department of Molecular Genetics, University of Texas Southwestern Medical Center Dallas, TX 75390, USA
*To whom correspondence should be addressed at 9500 Gilman Drive, Dept 0505, La Jolla, CA 92093-0505, USA. Tel: +1 858 822 0986; Fax: +1 858 822 3752; Email: shankar{at}sdsc.edu
Received August 15, 2006. Revised October 5, 2006. Accepted October 6, 2006.
The LIPID MAPS Structure Database (LMSD) is a relational database encompassing structures and annotations of biologically relevant lipids. Structures of lipids in the database come from four sources: (i) LIPID MAPS Consortium's core laboratories and partners; (ii) lipids identified by LIPID MAPS experiments; (iii) computationally generated structures for appropriate lipid classes; (iv) biologically relevant lipids manually curated from LIPID BANK, LIPIDAT and other public sources. All the lipid structures in LMSD are drawn in a consistent fashion. In addition to a classification-based retrieval of lipids, users can search LMSD using either text-based or structure-based search options. The text-based search implementation supports data retrieval by any combination of these data fields: LIPID MAPS ID, systematic or common name, mass, formula, category, main class, and subclass data fields. The structure-based search, in conjunction with optional data fields, provides the capability to perform a substructure search or exact match for the structure drawn by the user. Search results, in addition to structure and annotations, also include relevant links to external databases. The LMSD is publicly available at www.lipidmaps.org/data/structure/
The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors
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