Workshop on LIPID MAPS Bioinformatics Resources2012 ASBMB Annual Meeting, Sunday, April 22
A workshop covering bioinformatics resources for lipidomics will be presented by Dr. Eoin Fahy, LIPID MAPS Bioinformatics project coordinator, in room 11A on the Upper Level of the conference center. A brief overview, live demonstration and question-and-answer session of the online resources available on the LIPID MAPS website, including searchable lipid and gene/protein databases, structure drawing tools, mass-spectrometry prediction programs, lipid-related pathways, experimental protocols and consortium generated datasets will be presented. This workshop should be of interest to lipidomics researchers and bioinformaticists. It will highlight the diversity and unique structural and biochemical challenges of the lipidome, and will provide users with a suite of convenient online tools for the purpose of information retrieval and lipidomic data analysis.
A major effort of the LIPID MAPS program has been to make lipid analysis easier and more accessible, and to advance a robust research infrastructure for the broader international scientific community. In addition to holding our annual meetings, we regularly share our new findings and methods, and host powerful lipid resources at our website, www.lipidmaps.org, including:
- A highly searchable database of over 36,000 lipid structures based on the internationally accepted lipid classification, nomenclature and structural representation system created and maintained by LIPID MAPS in collaboration with an international group of lipid experts
- Detailed biochemical pathways elucidated
- Improved protocols for lipid separation and quantification
- Mass spectrometry tools for identifying and predicting lipid species
- Structure drawing tools for drawing lipid molecular structures in stereochemical detail
- Some 550 mass spectrometric standards
- Experimental data
- LIPID MAPS publications, including peer reviewed journal articles and book chapters
- Tutorials and lectures on lipid metabolism suitable for students, postdocs and senior investigators interested in having an introduction to the lipidomics field
- Research highlights, "lipid of the month", calendar of lipid-related conferences, and monthly updates
At our booth you will be able to explore the following and more:
LIPID MAPS databases overview and searching tips
Get an overview of the extensible, flexible and scalable LIPID MAPS suite of databases and try out the extensive browsing and searching tools available on the LIPID MAPS website. Our databases include the LIPID MAPS Structure Database (LMSD), an object-relational database based on our internationally accepted classification system that is the largest public lipid-specific repository in the world and the LIPID MAPS Proteome Database (LMPD), which houses genes and proteins involved in lipid metabolism and signaling.
Tools for lipidomics: Mass spectrometry prediction and structure drawing methods
Certain classes of lipids are good candidates for MS computational analysis because their molecular ion masses can often be predicted and because they tend to fragment predictably to give diagnostic product ions. Try out our search tools (which are integrated with the structure-drawing and isotopic-distribution tools), which allow users to enter an m/z value of interest and view a list of matching structure candidates, along with a list of calculated “high-probability” product ions.
LIPID MAPS tools for constructing and analyzing pathways
Get an overview of the tools LIPID MAPS has developed for managing, visualizing, and editing signaling and metabolic pathways related to lipid biology and see how these have been applied to the study of the extensive lipidomics and transcriptomic data generated from integrated studies on macrophages subjected to a variety of treatments. We will demonstrate the software and tools used to display and analyze lipid and gene array experimental data as well as constructing and visualizing lipid-related pathways.
For online documentation, tutorials, and examples of how to use these and other LIPID MAPS resources please see our Tutorials and instructions pages.