Detailed information about the course

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Title

Metabolomics: from data to publication

Dates

12-15 June 2017

Lang EN Workshop language is English
Responsable de l'activité

Ioannis Xenarios

Organizer(s)

SIB Training Group, Dr. Florence Mehl

Speakers

Allard Pierre-Marie
Benton Paul
Boccard Julien
Bridge Alan
Guitton Yann
Heinzmann Silke
Ibberson Mark
Ivanisevic Julijana
Moritz Franco
Rudaz Serge
Salek Reza
Schymanski Emma L.
Thomas Aurélien
Vinaixa Maria
Wolfender Jean-Luc
Zamboni Nicola

Description

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.

Location

University of Lausanne, Génopode, room 2020 (UNIL-Sorge M1 line stop)

Map

Map

Information

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.

Program

Monday June 12    
     
09h00 - 10h00 Introduction to metabolomics J-L. Wolfender & S. Rudaz
10h00 - 11h00 Metabolomics repository – data access, storage and sharing Reza Salek
11h00 - 11h30 Coffee break  
11h30 - 13h00 LC-MS data pre-processing with XCMS/CAMERA Paul Benton
13h00 - 14h00 Lunch  
14h00 - 15h30 Features filtering Maria Vinaixa
15h30 - 16h00 Coffee break  
16h00 - 17h30 Multivariate analysis Julien Boccard
     
     
Tuesday June 13    
     
09h00 - 10h30 Metabolite identification with mass-spectrometry Maria Vinaixa
10h30 - 11h00 Coffee break  
11h00 - 12h30 METLIN database Paul Benton
12h30 - 14h00 Lunch  
14h00 - 15h30 Non-target identification with high resolution mass spectrometry: Gathering the evidence Emma Schymanski
15h30 - 16h00 Coffee break  
16h00 - 17h30 Knowledge representations and resources for metabolomics Alan Bridge
     
     
Wednesday June 14 – Workflow4 Metabolomics hands-on course  
     
09h00 - 10h30 Introduction to Galaxy and Workflow4Metabolomics Yann Guitton
10h30 - 11h00 Coffee break  
11h00 - 12h30 LC-MS data pre-processing Yann Guitton
12h30 - 14h00 Lunch  
14h00 - 15h30 MS data processing (filtering and correcting data) Yann Guitton
15h30 - 16h00 Coffee break  
16h00 - 17h30 Downstream analysis (statistical workflow and metabolite identification) Yann Guitton
     
     
Thursday 15 June – Workshops (titles to be announced)  
     
09h00 – 09h45 Mass difference enrichment analysis for independent probing of metabolomes Franco Moritz
09h45 - 10h30 Generation and annotation of molecular networks Pierre-Marie Allard
10h30 - 11h00 Coffee break  
11h00 - 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 - 14h00 Lunch  
14h00 - 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 - 16h00 Coffee break  
16h00 - 16h45 Network-driven analysis of metabolomics data Nicola Zamboni
16h45 - 17h30 Lipid signatures in diabetes Mark Ibberson

Link to the SIB page

Expenses

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.

Registration

CUSO PhD students: through your MyCUSO account. External participants (non-CUSO PhD students, post-docs, etc...): use the icon "registration" at top of page and the last gray box "non-CUSO student" ("personne hors myCUSO"). 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.

Places

30

Deadline for registration 05.06.2017
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