Resources

LPPtiger2 is our flagship tool for analysis of oxidized complex lipids. It provides all-in-one-solution for our epilipidomics workflow, starting with knowledge based in silico prediction of modified lipids, in silico fragmentation using accurately defined rules, and identification from LC-MS/MS datasets. It also has the function to directly generate inclusion list for PRM experiments. LPPtiger2 provides interactive HTML output with its unique six-panel-image, which allows to review, store, and share the identification results.

Fragmentation patterns of oxidized complex lipids can be quite complex and require a lot of time for validation and accurate annotation. To speed up the epilipidomics workflow, we teamed up with the group of Laura Goracci from University of Perugia and linked LPPtiger2 with Lipostar2. Lipostar2 allows high-throughput processing of lipidomics datasets, and can filter out spectra of potentially oxidized lipids, which are send to LPPtiger2 for detailed identification and annotation. Results from both lipidomics and epilipidomics annotations are combined back by the Lipostar2, significantly speeding up data processing!

Want to use LPPtiger2? Check the tutorial video which will help you to start, or contact us if you need any help!

LipidHunter2 is capable to perform bottom-up identification of lipids from LC-MS/MS and shotgun lipidomics data by resembling a workflow of manual spectra annotation. LipidHunter provides interactive HTML output with its unique six-panel-image, which allows to review, store, and share the identification results.

Modern high throughput lipidomics provides large-scale datasets reporting hundreds of lipid molecular species. However, cross-laboratory comparison, meta-analysis, and systems biology integration of in-house generated and published datasets remain challenging due to a high diversity of used lipid annotation systems, different levels of reported structural information, and shortage in links to data integration resources. To support lipidomics data integration and interoperability of experimental lipidomics with data integration tools, we developed LipidLynxX serving as a hub facilitating data flow from high-throughput lipidomics analysis to systems biology data integration. LipidLynxX allows conversion from 25 different annotation styles, cross-matching of lipid datasets with different levels of structural confirmation, and linking of diverse lipid annotations to six different tools supporting lipid ontology, pathway, and network analysis aiming systems-wide integration and functional annotation of lipidome dynamics in health and disease. LipidLynxX is a flexible, customizable open-access tool freely available for download at https://github.com/SysMedOs/LipidLynxX as well as via web-interface on LIPID MAPS, at http://lipidmaps.org/lipidlynxx/.

LipidLynxX is directly integrated into the BioPAN software by LIPID MAPS to support fast conversion of different lipid annotation styles for the pathway analysis. Read more about BioPAN here ( F1000 Research 2021).

We also connected LipidLynxX with Lipostar2, to support fast conversion of the identification results in the preferred annotation style.

Want to use LipidLynxX? Check the tutorial video which will help you to start, or contact us if you need any help!

We further supplemented it with available literature data on the fragmentation of oxidized free fatty acids and complex lipids as well as available MS2 spectra from METLIN, LIPID MAPS, and MS DIAL.msp library, in form of fragmentation rules exemplified here for different modification types and positions on oxidized oleoyl (18:1), linoleoyl (18:2), and arachidonoyl (20:4) chains in PC, CE and TG lipids. If you are interested in oxidized lipids identification,  feel free to download the manual here.