The LIPID MAPS Structure Database (LMSD) is a relational database encompassing structures and annotations of biologically relevant lipids. As of 11/13/2019, LMSD contains 43659 unique lipid structures, making it the largest public lipid-only database in the world.
Structures of lipids in the database come from several sources: (i) LIPID MAPS Consortium's core laboratories and partners; (ii) lipids identified by LIPID MAPS experiments; (iii) biologically relevant lipids manually curated from LIPID BANK, LIPIDAT, Lipid Library, Cyberlipids, ChEBI and other public sources; (iv) novel lipids submitted to peer-reviewed journals; (v) computationally generated structures for appropriate classes.
All the lipid structures in LMSD adhere to the structure drawing rules proposed by the LIPID MAPS consortium. All lipids in the LMSD have been classified using the LIPID MAPS Lipid Classification System. Each lipid structure has been assigned a LIPID MAPS ID (LM_ID) which reflects its position in the classification hierarchy. In addition to a classification-based retrieval of lipids, users can search LMSD using either text-based or structure-based search options.
The LIPID MAPS Gene/Proteome Database (LMPD) is comprised of lipid-related genes and proteins; LMPD contains data for over 8,500 genes and over 12,500 proteins from Homo sapiens, Mus musculus, Rattus norvegicus, Saccharomyces cerevisiae, Caenorhabditis elegans, Escherichia coli, Macaca mulata, Drosophila melanogaster, Arabidopsis thaliana and Danio rerio.
We welcome your comments and suggestions from the public with regard to the accuracy and completeness of the LMPD.
|Human (Homo sapiens)||1116||2273|
|Mouse (Mus musculus)||1082||1504|
|Rat (Rattus norvegicus)||1258||1315|
|Rhesus monkey (Macaca mulata)||891||1634|
|Yeast (Saccharomyces cerevisiae (s288c))||720||720|
|E. coli (Escherichia coli(K12))||245||245|
|C. elegans (Caenorhabditis elegans)||595||868|
|Drosophila (Drosophila melanogaster)||404||1064|
|Arabidopsis (Arabidopsis thaliana)||1829||2447|
|Zebrafish (Danio rerio)||638||647|
The LIPID MAPS In-Silico Structure Database (LMISSD) is a relational database generated by computational expansion of headgroups and chains for a large number of commonly occurring lipid classes. LMISSD has been designed from an analytical chemistry perspective and a hierarchy of sum composition, chain composition and exact structures may be browsed for the various lipid classes.
Represented categories are glycerolipids (MG, DG, TG, MGDG, DGDG, SQDG), glycerophospholipids (PC, PE, PS, PG, PI, PA, PGP, PIP(n), CL) and sphingolipids (Cer, SM, CerP, PE-Cer, PI-Cer, GlcCer, GalCer, LacCer).
There are also a number of computationally generated fatty acyls (prostanes, furans) and sphingolipids (glycosphingolipids) that have been imported from LMSD. LMISSD currently has over 1.1 million structures (~ 25,000 of which overlap with LMSD). All entries have a LIPID MAPS ID, molfile, SMILES, InChIKey, exact mass, formula, systematic name and a set of abbreviations for sum composition, chain composition and exact structure.
COMP_DB is a virtual database composed of major classes of lipid species, generated from a list of commonly occuring acyl/alkyl chains. These \"Bulk\" lipid species indicate the number of carbons and number of double bonds, but not chain positions or double bond regiochemistry and geometry. Note that many of the lipids in COMP_DB may not be relevant to mammalian samples.
The Lipidomic Ion Mobility database was developed in collaboration with the McLean research group at Vanderbilt University, Nashville, TN who have generated a repository (The Unified Compendium) of > 3800 experimentally acquired CCS values obtained from traceable molecular standards and measured with drift tube-mass spectrometers.
The initial database was created by mapping a subset of 835 lipid measurements to the LIPID MAPS classification system and contains representatives from 7 of the 8 major lipid categories. We have recently expanded the database to include data provided by the Griffin lab at the University of Cambridge, UK, who aquired 47 Fatty Acids, for which a total of 268 conformers could be detected.
The Lipidomic Ion Mobility database can be searched by lipid name and filtered by LIPID MAPS lipid category.
|Lipid Category||Number of Lipids|