LIPID MAPS® highlights

Selected content from the LIPID MAPS Consortium, including new and updated tools, data interfaces, tutorials, meeting notices, and more.

June, 2018

Colleagues,

We are delighted to launch the new LIPID MAPS Lipidomics Gateway, funded by the Wellcome Trust and jointly hosted by Cardiff University, Babraham Institute and University of California San Diego (UCSD). These are exciting times as we move forward with Phase II of this global project.

Our new site provides easier access to the most utilized areas: Lipid Classification System; Structure Database; and Tools. Curation has restarted, with over 500+ new lipid molecules added in the last few months with many now featured in our structure drawing tools.

Back in 2016, we asked you what you would like to see on LIPID MAPS, and in response we provide new features including raw MS data deposition in collaboration with Metabolomics Workbench (which already hosts over 500 lipidomics studies), and statistical analysis tools. We include a contact form for you to get in touch with us and provide feedback. We also have a registration facility, and will be using this as a mailing list in the coming months to send out a periodic newsletter. Registration is quick and easy.

Over the coming months, new features will be added including updated protocols and systems biology/pathway tools. We are keen to hear from potential partners in the areas of education, outreach and standardisation, as well as commercial partners. We are committed to working with our users to provide more and better tools to our global research community, and remain at heart a community driven open-access resource.


Best wishes,

LIPID MAPS

June, 2018

Colleagues,

We are delighted to launch the new LIPID MAPS Lipidomics Gateway, funded by the Wellcome Trust and jointly hosted by Cardiff University, Babraham Institute and University of California San Diego (UCSD). These are exciting times as we move forward with Phase II of this global project.

Our new site provides easier access to the most utilized areas: Lipid Classification System; Structure Database; and Tools. Curation has restarted, with over 500+ new lipid molecules added in the last few months with many now featured in our structure drawing tools.

Back in 2016, we asked you what you would like to see on LIPID MAPS, and in response we provide new features including raw MS data deposition in collaboration with Metabolomics Workbench (which already hosts over 500 lipidomics studies), and statistical analysis tools. We include a contact form for you to get in touch with us and provide feedback. We also have a registration facility, and will be using this as a mailing list in the coming months to send out a periodic newsletter. Registration is quick and easy.

Over the coming months, new features will be added including updated protocols and systems biology/pathway tools. We are keen to hear from potential partners in the areas of education, outreach and standardisation, as well as commercial partners. We are committed to working with our users to provide more and better tools to our global research community, and remain at heart a community driven open-access resource.


Best wishes,

LIPID MAPS

April, 2018

Subcellular fractionation studies on macrophages Measurements of lipid quanitities present in various cell fractions (cytoplasm, ER, mitochondria, nucleus, plasma membrane) for control and treatment with Kdo2-Lipid A. Experiments were conducted with RAW264.7 cells.

March, 2018

Subcellular fractionation studies on macrophages Measurements of lipid quanitities present in various cell fractions (cytoplasm, ER, mitochondria, nucleus, plasma membrane) for control and treatment with Kdo2-Lipid A. Experiments were conducted with RAW264.7 cells.

February, 2018

LIPID MAPS Structure Database (LMSD) Structure-Data File (SDF) Download

Download the latest exports of structures and annotations — updated December 12, 2017 — from the LIPID MAPS Structure Database (LMSD) as an SDF.

Annotations include:
LM_ID, COMMON_NAME, CATEGORY, MAIN_CLASS, SUB_CLASS, CHEBI_ID, INCHI_KEY,LIPID_MAPS_CMPD_URL, PUBCHEM_SUBSTANCE_URL, SYSTEMATIC_NAME, SYNONYMS,EXACT_MASS, FORMULA, LIPIDBANK_ID, PUBCHEM_SID, KEGG_ID, HMDBID, INCHI KEY, INCHI STRING, STATUS

January, 2018

PlantFA Database

LIPID MAPS has recently incorporated several hundred plant fatty acid structures, including common names and other annotations from the PlantFA Database (https://plantfadb.org/) at Michigan State University. This resource provides updates and enhancements to the Seed Oil Fatty Acid (SOFA) database at the Max Rubner-Institute (http://sofa.mri.bund.de). The PlantFA Database contains data and references for hundreds of fatty acids synthesized by thousands of plants along with their phylogenetic relationships. Currently the LIPID MAPS Structure Database contains over 550 plant fatty acids with links to the corresponding PlantFA online source, for example Coniferonic acid with a PlantFA id of 10121.

December, 2017

Lipidomics Services

LIPID MAPS methodology and protocols are freely available in our Lipidomics methods and protocols sections. MS standards are available from Avanti Polar Lipids, Inc.

Lipidomics analyses using these protocols and standards are available from the LIPID MAPS Lipidomics Core at UC San Diego and from Avanti on a fee for service basis.

November, 2017

The LIPID MAPS Structure Database (LMSD) is a relational database encompassing structures and annotations of biologically relevant lipids and includes representative examples from each category of the LIPID MAPS Lipid Classification System. LMSD is the largest public lipid-only database in the world, containing over 40,000 unique lipid structures. Entries include lipids from human, mouse, plants, bacteria, fungi, algae and marine organisms, and computationally generated structures (annotated as such).

October, 2017

The LIPID MAPS Structure Database (LMSD) is a relational database encompassing structures and annotations of biologically relevant lipids and includes representative examples from each category of the LIPID MAPS Lipid Classification System. LMSD is the largest public lipid-only database in the world, containing over 40,000 unique lipid structures. Entries include lipids from human, mouse, plants, bacteria, fungi, algae and marine organisms, and computationally generated structures (annotated as such).

September, 2017

LIPID MAPS Protocols - Protocols developed by the LIPID MAPS Consortium for equipment and supplies, procedures, and solutions. Procedure protocols include protocols for primary macrophages, treatment with Kdo2-Lipid A, treatment with 25-OHC, subcellular fractionation, extraction and analysis of various lipid categories, and more. Solution protocols include protocols for Kdo2-Lipid A, growth mediums for primary and cultured macrophages, stock solutions, standards, and more.

August, 2017

We are pleased to announce a collaboration with William (Bill) W. Christie, who has kindly agreed to share some of the valuable lipid resources from his website, 'The Lipid Web'. To that end, his blog, "Lipid Matters - A Personal Blog" is now available via the LIPID MAPS Lipidomics Gateway.

The July 19th, 2017 entry begins:

In the search for new antibiotics, lipopeptides appear to offer great potential if problems of toxicity can be overcome. Paenibacillus sp. have proved to be of special interest, and a new report describes a fresh isolate that produces novel cyclic and linear lipopeptides . . . more lipid matters

July, 2017

LIPID MAPS Structure Drawing Tools - Draw and save complex lipid structures using either a simple menu-based interface or by entering an abbreviation (where appropriate). Structures are rendered with Javascript / Ketcher and may be saved in a number of formats.

June, 2017

LIPID MAPS mass spectrometry combinatorial expansion package - The LIPID MAPS mass spectrometry combinatorial expansion package contains a set of PHP scripts to generate datasets contining species name, m/z and molecular formula for some of the main lipid categories: Glycerophospholipids (GP); Glycerolipids (GP); Cardiolipins (GP); Sphingolipids (SP). Generate a tabular output of lipid species containing the species abbreviation, nominal mass, exact mass (or m/z if charged), molecular formula, ion type (if specified) by a combinatorial expansion of a user-specified range of chain lengths and chain-length-to-double-bond restrictions. The output is printed to standard output (screen) but may conveniently be saved to a tab-delimited file.

May, 2017

Lipidomics Services - LIPID MAPS methodology and protocols are freely available in our Lipidomics methods and protocols sections. MS standards are available from Avanti Polar Lipids, Inc.

Lipidomics analyses using these protocols and standards are available from the LIPID MAPS Lipidomics Core at UC San Diego and from Avanti on a fee for service basis.

April, 2017

LIPID MAPS Classification updates: The LIPID MAPS Classification system, comprised of eight lipid categories -- Fatty Acyls, Glycerolipids, Glycerophospholipids, Sphingolipids, Sterol Lipids, Prenol Lipids, Saccharolipids, and Polyketides, each with its own subclassification hierarchy -- now includes a new Polyketides class, "Phenolic lipids", with 5 subclasses; In addition, there are now 3 new subclasses of Octadecanoids; 3 new subclasses of Eicosanoids; and 7 new subclasses of Docosanoids.

March, 2017

LIPID MAPS REST service The LIPID MAPS REST service enables access to a variety of data (including lipid structures and lipid-related genes/proteins) using HTTP requests. These requests may be carried out using a web browser or may be embedded in 3rd party applications or scripts to enable programmatic access. Most modern programming languages including PHP, Perl, Python, Java and Javascript have the capability to create HTTP request and interact with datasets such as this REST service.

Funding opportunity - The NBIA Disorders Association is accepting applications for one-year grants for related to the early detection, diagnosis, or treatment of patients with two forms of NBIA: Beta-propeller Protein-Associated Neurodegeneration (BPAN), and Fatty Acid Hydroxylase-associated Neurodegeneration (FAHN), caused by a mutation in the FA2H gene.

February, 2017

Keystone Symposia
on Molecular and Cellular Biology:
Lipidomics and Bioactive Lipids in Metabolism and Disease

Feb 26 - Mar 2, 2017
Tahoe City, California, USA

January, 2017

Keystone Symposia
on Molecular and Cellular Biology:
Lipidomics and Bioactive Lipids in Metabolism and Disease

Feb 26 - Mar 2, 2017
Tahoe City, California, USA

December, 2016

Keystone Symposia
on Molecular and Cellular Biology:
Lipidomics and Bioactive Lipids in Metabolism and Disease

Feb 26 - Mar 2, 2017
Tahoe City, California, USA

November, 2016

LIPID MAPS Proteome Database (LMPD) - The LIPID MAPS Proteome Database (LMPD) of lipid-related genes and proteins 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.

October, 2016

LIPID MAPS Proteome Database (LMPD) - The LIPID MAPS Proteome Database (LMPD) of lipid-related genes and proteins 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.

September, 2016

LIPID MAPS Proteome Database (LMPD) - The LIPID MAPS Proteome Database (LMPD) of lipid-related genes and proteins 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.

August, 2016

MS Analysis Tools - Perform searches with precursor ion or product ion peaklists on a variety of lipid classes, where structures are generated by computational methods or are present in the LIPID MAPS structure database. Display various structural properties (exact mass, formula, abbreviation, etc.) for matched ions with links to molecular structures and isotopic distribution profiles where appropriate. Generate in-silico product ion peaklists for glycosphingolipids.

July, 2016

Structure Drawing Tools - Draw and save complex lipid structures using either a simple menu-based interface or by entering an abbreviation (where appropriate). Structures are rendered using Javascript / Ketcher and may be saved in a number of formats.

June, 2016

LIPID MAPS lipid standards - MS/MS spectra and more for over 500 lipid standards used by the LIPID MAPS Consortium, searchable by lipid category

May, 2016

postersession
LIPID MAPS® Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases

Poster abstracts (.pdf) are now available!

April, 2016


LIPID MAPS® Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases

Important dates

April 01, 2016 - Early registration deadline
March 25, 2016 - Poster abstract deadline
April 10, 2016 - Hotel reservation deadline
April 28, 2016 - Registration cancellation deadline
May 17-18, 2016 - Meeting dates

March, 2016


LIPID MAPS® Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases

Important dates

April 01, 2016 - Early registration deadline
March 25, 2016 - Poster abstract deadline
April 10, 2016 - Hotel reservation deadline
April 28, 2016 - Registration cancellation deadline
May 17-18, 2016 - Meeting dates

February, 2016

LIPID MAPS® Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases - Register now to ensure your spot!

Early Registration deadline: March 25, 2016

January, 2016

Key Lipidomics Publications - View a growing list of key publications from members of the LIPID MAPS Consortium and other lipidomics researchers.

LIPID MAPS® Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases - Register now to ensure your spot!

December, 2015

The LIPID MAPS® Proteome Database (LMPD) of lipid-related genes and proteins 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.

LIPID MAPS® Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases - Register now to ensure your spot!

November, 2015

Lipid of the Month Archive - The LIPID MAPS Lipid of the Month Archive currently lists lipids highlighted from August, 2012 - present. For each lipid, the structure, lipid name, and a brief description are shown. Each lipid is linked to the corresponding entry in the LIPID MAPS Structure Database (LMSD), where LIPID MAPS Classification information, external database IDs, and other annotations may be viewed and downloaded.

LIPID MAPS Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases - See the updated list of speakers!

October, 2015

Search a virtual database of lipid classes or the LIPID MAPS structure database (LMSD) with a list of precursor ions. - A database composed of major classes of lipid species has been generated from a list of commonly occuring acyl/alkyl chains. Chain positions and double bond regiochemistry and geometry are not specified. Search the database by entering a list of precursor ion m/z values, selecting an appropriate ion type and mass tolerance range. Optionally restrict the search to certain lipid classes.

LIPID MAPS Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases - The meeting program is now available and registration is open!

September, 2015

LIPID MAPS Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases

The meeting program tentatively features the following sessions:

- From Cancer Stem Cells to Fatty Liver Disease
- Metabolomics
- Metabolic Diseases
- Eicosadomics and Inflammation
- Cholesterolomics, Oxidized Lipids and Cardiovascular Disease
- Lipid Mediators and Cancer

Registration is Open!

August, 2015

LIPID MAPS Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases - Registration is Open!

July, 2015

Save the date! LIPID MAPS Annual Meeting 2016: Lipidomics Impact on Metabolic, Cancer, Cardiovascular and Inflammatory Diseases will take place May 17-18, 2016 at Scripps Forum, UCSD, La Jolla, CA.

See our LIPID MAPS Events Calendar for this and other events.

June, 2015

LIPID MAPS Events Calendar - Over two dozen events are currently listed in this comprehensive directory of meetings, conferences and other events of interest to lipid researchers. Please contact us if you know of an event that should be added to the list!

May, 2015

LIPID MAPS REST service The LIPID MAPS REST service enables access to a variety of data (including lipid structures and lipid-related genes/proteins) using HTTP requests. These requests may be carried out using a web browser or may be embedded in 3rd party applications or scripts to enable programmatic access. Most modern programming languages including PHP, Perl, Python, Java and Javascript have the capability to create HTTP request and interact with datasets such as this REST service.

LIPID MAPS Annual Meeting 2015 - poster titles and abstracts (pdf) are now available for download. Just a few seats remain. Don't miss out on this exciting meeting!

April, 2015

LIPID MAPS Annual Meeting 2015 - Early registration was extended to April 3, 2015. Seats are filling up fast! Don't miss out on this exciting meeting!

March, 2015

LIPID MAPS Proteome Database (LMPD) - The LIPID MAPS Proteome Database (LMPD) of lipid-related genes and proteins 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.

February, 2015

LIPID MAPS Protocols - Protocols developed by the LIPID MAPS Consortium for equipment and supplies, procedures, and solutions. Procedure protocols include protocols for primary macrophages, treatment with Kdo2-Lipid A, treatment with 25-OHC, subcellular fractionation, extraction and analysis of various lipid categories, and more. Solution protocols include protocols for Kdo2-Lipid A, growth mediums for primary and cultured macrophages, stock solutions, standards, and more.

January, 2015

LIPID MAPS Annual Meeting 2015: Lipidomics Impact on Cancer, Metabolic, and Inflammatory Diseases (12th annual meeting) - May 12-13, 2015, La Jolla, CA.

The meeting program tentatively features the following sessions:

- Metabolomics
- Lipidomics of Cancer
- Lipidomics and Metabolic Disease
- Eicosanoids and the Inflammatory Response
- Lipid Interactions with Membrane Proteins
- Lipids and Immunity