ATGCCGGAATTGGCACATAACAAGTACTGCCTCGGTCCTTAAGCTGTATTGCACCATATGACGGATGCCGGAATTGGCACATAACAAGTAC
TGCCTCGGTCCTTAAGCTGTATTGCACCATATGACGGATGCCGGAATTGGCACATAACAACGGTCCTTAAGCTGTATTGCACCATATGACG
GATGCCGGAATTGGCACATAACAAGTACTGCCTCGGTCCTTAAGCTGTATTTCGGTCCTTAAGCTGTATTCCTTAACAACGGTCCTTAAGG
ATGCCGGAATTGGCACATAACAAGTACTGCCTCGGTCCTTAAGCTGTATTGCACCATATGACGGATGCCGGAATTGGCACATAACAAGTAC
TGCCTCGGTCCTTAAGCTGTATTGCACCATATGACGGATGCCGGAATTGGCACATAACAACGGTCCTTAAGCTGTATTGCACCATATGACG
GATGCCGGAATTGGCACATAACAAGTACTGCCTCGGTCCTTAAGCTGTATTTCGGTCCTTAAGCTGTATTCCTTAACAACGGTCCTTAAGG
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Metabolomics: from data to publication
01 June 2017
For-profit: 0 CHF
No future instance of this course is planned yet
This course is co-organised by the CUSO/StarOmics doctoral program. Priority is given to its members, but is open to everyone.
Overview
We aim at detailing state-of-the-art advancement of metabolomics, which represents a powerful approach and an alternative to the classical other omics. It represents a better phenotypic picture by reflecting the biochemical activity of the cells. This course will provide an overview of handling metabolomics data (from rawdata to biological knowledge) using bioinformatics tools. It will be delivered using a mixture of lectures, computer-based practical sessions and interactive discussions
Audience
This course targets phD students, postdocs
Learning objectives
At the end of this course, participants are expected to be able to:
- pre-process LC-MS metabolomics raw data;
- process and analyse metabolomics data;
- understand and discuss current trends and challenges in metabolomics
Prerequisites
Knowledge / competencies:
Although not required, basic knowledge of mass spectrometry, analytical chemistry, and statistics is a plus.
Technical:
Participants must bring a laptop
Application
Application is open, please click on the link at the bottom of the page.
No registration fees for members of staromics, otherwise they are 200 CHF for academics. This includes course content material, coffee breaks and a social dinner. Participants from non-academic institutions should contact us before application.
Deadline for registration and free-of-charge cancellation is set to June 1, 2017. Cancellation after this date will not be reimbursed. Please note that participation to SIB courses is subject to this and other general conditions, available here.
Location
University of Lausanne, Génopode Building, room 2020 (UNIL sorge M1 line stop)
Additional information
Coordination: Florence Mehl (SIB/UNIL), Grégoire Rossier (SIB), Corinne Dentan (UNIL/CUSO/Staromics)
You are welcome to register to the SIB courses mailing-list to be informed of all future courses and workshops, as well as all important deadlines using the form here.
For more information, please contact training@sib.swiss.
Provisional program
Monday 12 June
9h - 10h | Introduction to metabolomics | J-L. Wolfender & S. Rudaz |
10h - 11h | Metabolomics repository – data access, storage and sharing | Reza Salek |
11h - 11h30 | Coffee break | |
11h30 - 13h | LC-MS data pre-processing with XCMS/CAMERA | Paul Benton |
13h - 14h | Lunch | |
14h - 15h30 | Features filtering | Maria Vinaixa |
15h30 - 16h | Coffee break | |
16h - 17h30 | Multivariate analysis | Julien Boccard |
Tuesday 13 June
9h - 10h30 | Metabolite identification with mass-spectrometry | Maria Vinaixa |
10h30 - 11h | Coffee break | |
11h - 12h30 | METLIN database | Paul Benton |
12h30 - 14h | Lunch | |
14h - 15h30 | Non-target identification with High Resolution Mass Spectrometry: Gathering the Evidence | Emma Schymanski |
15h30 - 16h | Coffee break | |
16h - 17h30 | Knowledge representations and resources for metabolomics | Alan Bridge |
Wednesday 14 June – Workflow4Metabolomics hands-on course
9h - 10h30 | Introduction to Galaxy and Workflow4Metabolomics | Yann Guitton |
10h30 - 11h | Coffee break | |
11h - 12h30 | LC-MS data pre-processing | Yann Guitton |
12h30 - 14h | Lunch | |
14h - 15h30 | MS data processing (filtering and correcting data) | Yann Guitton |
15h30 - 16h | Coffee break | |
16h - 17h30 | Downstream analysis (statistical workflow and metabolite identification) | Yann Guitton |
Thursday 15 June – Workshops (titles to be announced)
9h – 9h45 | Franco Moritz | |
9h45 - 10h30 | Generation and annotation of molecular networks | Pierre-Marie Allard |
10h30 - 11h | Coffee break | |
11h - 11h45 | Of magnets, mice and men: NMR-based metabolomics for biomarker investigation in health and disease | Silke Heinzmann |
11h45 - 12h30 | In Situ Metabolomics by Mass Spectrometry Imaging | Aurélien Thomas |
12h30 - 14h | Lunch | |
14h - 14h45 | Metabolomics-led system’s wide clinical study towards understanding the mechanism of Alzheimer disease | Julijana Ivanisevic |
14h45 - 15h30 | From metabolomics to testable hypotheses | Nicola Zamboni |
15h30 - 16h | Coffee break | |
16h - 16h45 | Network-driven analysis of metabolomics data | Nicola Zamboni |
16h45 - 17h30 | Lipid signatures in diabetes | Mark Ibberson |