http://www.lipidmaps.org/news/ LIPID MAPS Consortium http://www.lipidmaps.org/downloads/2007_methods_chapters.pdf Download LIPID MAPS Methods in Enzymology Vol 432 Chapters as a single PDF. http://www.lipidmaps.org/tools/ A number of new web-based MS prediction tools for analysis of data on glycerophospholipids, glycerolipids, cardiolipins, sphingolipids, fatty acids and cholesteryl esters have been added to the Tools section of the LIPID MAPS website (http://www.lipidmaps.org/tools/index.html). These tools allow end-users to enter peaklists of precursor ion data and obtain a table of predicted molecular species, based on permuations of commonly occurring side-chains and/or known lipid structures. A standalone Windows version is also available for download. http://www.lipidmaps.org/data/structure/index.html Download exports of structures and annotations from the LIPID MAPS Structure Database (LMSD). Annotations include: LM ID, Common Name, Systematic Name, Exact Mass, Formula, Category, Main Class, Subclass, Synonyms, PubChem Substance ID (SID), and Status. http://www.lipidmaps.org/tools/index.html The LIPID MAPS Tools Package contains command-line Perl scripts to generate SD files containing structure and ontological data for various lipid categories. The current version supports structure generation for Fatty acyls, Glycerolipids, Glycerophospholipids, Cardiolipins, Sphingolipids and Sterols. http://www.lipidmaps.org/discussion/ Publicly accessible discussion forum. Current topics include: Lipids: General, Lipid Classification, Lipid Mass Spectrometry, Lipid Extraction and Purification, Lipid Biochemistry, and Lipid-related Biochemical Pathways, Research Ideas and Applications Generated from LIPID MAPS Data. http://www.lipidmaps.org/guidedtour/ A walk through the LIPID MAPS website in which we highlight key features of the website; introduce some soon to be released features, including lipid pathways and additional data from lipidomics studies on macrophages; and discuss some of our in-house software for data analysis. http://www.lipidmaps.org/data/results/raw2647/kdo2lipidatimecourse/ Browse and search data from experiments conducted on RAW264.7 cells treated with Kdo2-Lipid A and Kdo2-Lipid A + compactin plus experiments on thioglycolate-elicited and bone-marrow derived primary macrophages treated with Kdo2-Lipid A, including data from foam cell studies with LDLR(-/-) and wild-type mice. Query options include filtering by lipid category, gene symbol, KEGG pathway, fold-change, and more. http://www.lipidmaps.org/data/ Browse and search data from experiments conducted on RAW264.7 cells treated with Kdo2-Lipid A and Kdo2-Lipid A + compactin plus experiments on thioglycolate-elicited and bone-marrow derived primary macrophages treated with Kdo2-Lipid A, including data from foam cell studies with LDLR(-/-) and wild-type mice. Query options include filtering by lipid category, gene symbol, KEGG pathway, fold-change, and more. http://www.lipidmaps.org/data/standards/ Our library of lipid standards now totals 329 records, including 182 glycerophospholipids, and can now be searched by lipid name. Results include LM_ID (linked to LMSD), common and systematic names, MS/MS measurements (linked to fragmentation spectra), links to experiment details, and more. http://www.lipidmaps.org/tools/ The LIPID MAPS Tools Package contains command-line Perl scripts to generate SD files containing structure and ontological data for various lipid categories. The current version supports structure generation for Fatty acyls, Glycerolipids, Glycerophospholipids, Cardiolipins, Sphingolipids and Sterols. http://www.lipidmaps.org/protocols/ The following new protocols are now available for download: Harvesting and Plating Thioglycollate Elicited Macrophages; Harvesting and Plating Bone Marrow-derived Macrophages; Kdo2-lipid A Treatment of Thioglycollate and Bone Marrow Derived Macrophages; Eliciting Thioglycollate derived Macrophages; and Bone Marrow-derived Macrophage Growth Medium. http://www.lipidmaps.org/data/results/raw2647/microarray/ Cells were grown in 10% fetal calf serum and harvested at each of ten time points after treatment with 100ng/ml Kdo2-Lipid A. At each time point an Agilent Whole Mouse Genome DNA microarray was hybridized, with Kdo2-Lipid A on the green channel and the control on the red channel. The experiment was performed three times, for three biological replicates. http://www.lipidmaps.org/ The LIPID MAPS Consortium is conducting an open Workshop on "Lipidomics" at Experimental Biology 2007 under the auspices of the American Society for Nutrition. A panel of eight experts will discuss methods that have been developed under an NIH (NIGMS) "Glue-grant" for analysis of neutral glycerolipids, phospholipids, eicosanoids, sterols, sphingolipids, prenols and various novel lipids by mass spectrometry as well as related issues such as sample extraction, internal standards, data handling and display, and nomenclature. In addition to reviewing the LIPID MAPS protocols, the panel will invite questions and discussion regarding these issues and the directions of future lipidomics research and developments. The workshop will be held in the Grand Ballroom South of the Renaissance Hotel, 999 Ninth Street NW, Washington, DC, from 8 am to 1 pm on Saturday, April 28, 2007, including an hour for open discussion over snacks. Attendance is free (registration for FASEB Experimental Biology is not required), but persons who are interested in attending are encouraged to contact Al Merrill (al.merrill@biology.gatech.edu). "Walk ins" are also welcome. Funding for the workshop has been provided by the LIPID MAPS Glue grant (U54 GM069338), Avanti Polar Lipids and Applied Biosystems. http://www.lipidmaps.org/data/structure/ The Structure Database (LMSD) now has over ten thousand records! http://www.lipidmaps.org/data/structure/ The Structure Database (LMSD) record view now includes a KEGG ID, linked to KEGG LIGAND COMPOUND. http://www.lipidmaps.org/data/results/raw2647/kdo2lipidatimecourse/ We have continued to improve the interface to our Kdo2-Lipid A timecourse data, and now provide the following query options: browse averages of biological replicates by analyte category; select and graph any combination of analytes; search by Kdo/Ctrl ratio at any timepoint; search by ANOVA p-value; and download timecourse data as a tab-delimited file. Experiments were conducted with RAW264.7 cells fed 10% fetal calf serum. Measurements were taken at 0, 0.5, 1, 2, 4, 8, 12, and 24hrs for both Kdo2-Lipid A and control. http://www.lipidmaps.org/data/results/raw2647/kdo2lipidatimecourse/ Time course data are now available for Sterols (ST). Experiments were conducted with RAW264.7 cells fed 10% fetal calf serum. Measurements were taken at 0, 0.5, 1, 2, 4, 8, 12, and 24hrs for both Kdo2-Lipid A and control. http://www.lipidmaps.org/data/results/raw2647/kdo2lipidatimecourse/ Kdo2-Lipid A time course data are now available for Fatty Acids (FA), Sphingolipids(SP), Glycerophospholipids(GP), Prenol Lipids(PR), and Glycerolipids(GL). Experiments were conducted with RAW264.7 cells fed 10% fetal calf serum. Measurement were taken at 0, 0.5, 1, 2, 4, 8, 12, and 24hrs for both Kdo2-Lipid A and control. http://www.lipidmaps.org/data/structure/ Download exports of structures and annotations from the LIPID MAPS Structure Database (LMSD). Annotations include: LM ID, Common Name, Systematic Name, Exact Mass, Formula, Category, Main Class, Subclass, Synonyms, PubChem Substance ID (SID), and Status. http://www.lipidmaps.org/tools/ Command line Perl scripts to generate SD files containing structure and ontological data for various lipid categories. The current version supports structure generation for Glyceriphospholipids (GP) and Glycerolipids (GL). http://www.lipidmaps.org/data/structure/ LM_ID, Common Name, Systematic Name, Mass, Formula by lipid category, with LM_IDs linked to record views showing lipid structure and additional annotations. http://www.lipidmaps.org/data/structure/ We have enhanced the LMSD structure-based searches so that you can now perform a structure-based search, view search results, and then *modify* the initial structure drawing to perform another search. http://www.lipidmaps.org/data/classification/classification.txt Download the complete LIPID MAPS lipid classification scheme as one text file. http://www.lipidmaps.org/data/classification/ We have recentlty updated our lipid classification system and added a number of entries to the LIPID MAPS Structure Database (LMSD), for a current total of 8907 records. http://www.lipidmaps.org/data/results/raw2647/kdo2lipidatimecourse/tenpercentserum.php/ RAW264.7 cells used in this experiment were fed 10% fetal calf serum. http://www.lipidmaps.org/protocols/ We have recently revised the protocol for treatment of Kdo2-Lipid A with 10% fetal calf serum. Please see our LIPID MAPS Protocols page at http://www.lipidmaps.org/protocols/ for access to PDF documents describing key LIPID MAPS protocols, including protocols for "Thawing and Passaging Procedure", "Harvesting and Plating of Primary Macrophages", "Primary Macrophage Treatment", "Sonicated Kdo2-Lipid A Working Solution", and more. http://www.lipidmaps.org/data/results/raw2647/microarray/ Microarray analysis was used to find gene expression response in RAW264.7 cells over time. Two groups of control and two groups of RAW 264.7 cells were harvested 30m,60m,90m,2h,4h,6h,8h,12h,18h, and 24h after treatment with 100ng/ml Kdo2-Lipid A. At each time point 2 Agilent arrays were hybridized, one with Kdo2-Lipid A on the green channel (control on RED) and the other with Kdo2-Lipid A on the red (control on the GREEN) i.e. dye-swapped. http://www.lipidmaps.org/data/structure/structure_search.php Search the Lipid Structure Database by substructure or exact match. http://www.lipidmaps.org/publications/ We have added links to LIPID MAPS Publications at http://www.lipidmaps.org/publications/. Links to the most recent publications can also now be found on our home page. http://www.lipidmaps.org/data/classification/ We have recently added computationally derived structures of acylglycerols and glycerophosphocholines to the LIPID MAPS Lipid Structure Database, bringing the total number of structures to 7690. We have added links to these structures from within our Lipid Classification Scheme. http://www.lipidmaps.org/news/ LIPID MAPS Consortium News is now available as an RSS feed. This feed will contain the same content that is available on our home page under "News!" and archived at http://www.lipidmaps.org/news/