Educators:
Jacobo Miranda Ackerman, Fadi Al Machot, Nils Hoffmann (BioInfra.Prot / LIFS)
Date:
October 1st, 2020
Deadline for Workshop Registration:
September 25th, 2020
Location:
Online, virtual workshop as part of the joint European Lipidomics Meeting & Lipidomics Forum 2020.
Contents:
In the first part of the course, we will work through an example for targeted LC-MS lipidomics with LipidCreator and Skyline. In the second part of the course, we will apply PeakStrainer and LipidXplorer for filtering, identification and quantification of lipid signals from shotgun lipidomics. 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 work through a typical use-case of downstream data processing of shotgun lipidomics data following MS acquisition with LipidXplorer. We will inspect, check and normalize the data as well as calculate absolute quantities using internal class-specific standards with lxPostman. We will then perform a qualitative comparison of the lipidomes using the LUX Score lipidome homology.
09:00 – 09:30 Welcome and Introduction
09:30 – 12:00 Targeted Lipidomics with LipidCreator and Skyline
12:00 – 13:00 Break
13:00 – 15:00 Shotgun Lipidomics with PeakStrainer and LipidXplorer
15:00 – 17:00 Downstream processing with lxPostman and lipidome comparison with LUX Score
Learning goals:
Participants will be able to understand and explain the shotgun MS and targeted 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.
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. We will use Zoom to host the workshop. To participate, please ensure that the Zoom client software is installed on your computer.
Keywords:
Lipidomics, Shotgun, Targeted, LC-MS
Tools:
PeakStrainer and LipidXplorer, LipidCreator, Skyline, lxPostman, LUX Score
Registration:
Participation is free of charge and separate from the registration for the European Lipidomics Meeting / Lipidomics Forum 2020. Please register for the workshop via the following form:
https://lipidomics.at/nextcloud/index.php/apps/forms/9bQAmosykg7p3Pqo
External Course site:
https://lifs.isas.de/training/89-lifs-bioinformatics-for-lipidomics-workshop-at-elm-2020.html
Contact:
Nils Hoffmann