LIFS

In this workshop, we will give participants a brief overview of some of the challenges that exist in lipidomics identification and quantification from mass spectrometry data and how they should best be tackled. We will present the recommendations provided by the Lipidomics Standards Initiative and will discuss why and when they make sense to be applied. Further, we will give an overview of existing resources and tools for lipidomics researchers, to make data analysis, integration and interpretation easier, also in relation to multi-omics integration efforts. The workshop will include hands-on exercises that walk participants through a typical analysis of a lipidomics MS experiment using a mix of local and web-based software.

Educators:
Nils Hoffmann (FZ Jülich, Uni WIen, LIFS)

Location:
On-Site training.

Contents:

The first part of the course will give a short overview of Lipidomics and its challenges to participants. In the second part of the course, we will work through an example for targeted LC-MS lipidomics with LipidCreator and Skyline. The course will consist of a short theory and background overview of the employed programs complemented by the application of the tools to provided data sets. The third part of this course will introduce the Lipidomics Checklist. Part 4 will present LipidSpace, a UI tool to compare and cluster quantitative lipidomics results using the shorthand lipid nomenclature and graph-based similarity and lipid structural space embedding. Finally, we will check out mzQC, not only in the context of lipidomics, and why it may be a really versatile file format for MS-derived QC metrics.

Learning goals:
Participants will be able to understand and explain the targeted and DIA LC-MS workflows for lipidomics. They will learn the fundamentals of the software tools used and how to choose parameters for them. They will learn to understand and interpret the results of each step of the pipeline, have a basic understanding on how to report their results and how to ensure good quality.

Prerequisites:
Basic knowledge of lipidomics, analytical workflows in lipidomics and basic familiarity with web-based and desktop applications. Please note that you may need to install software on your computer to fully participate in all exercises which may require the proper rights. The workshop will be a mix of small lecture segments and hands-on exercises. The trainers will be available for questions and assistance during the workshop.

Keywords:
Lipidomics, Targeted, LC-MS, DIA

Tools:
LipidCreator, Skyline, Goslin, LipidSpace, Lipidomics Minimal Reporting Checklist, mzQC