Introduction to Metabolomics Analysis

Date:

 Tuesday 20 Friday 23 March 2018

Venue: 

European Bioinformatics Institute (EMBL-EBI) - Wellcome Genome Campus, Hinxton, Cambridge,  CB10 1SD, United Kingdom

Application opens: 

Monday September 18 2017

Application deadline: 

Saturday January 13 2018

Participation: 

Open application with selection

Contact: 

Emily Rees

Registration fee: 

£300

Registration closed

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Overview

This course will provide an introduction to metabolomics data analysis using publicly available software and tools. Participants will become familiar with the current state of experimental design, data standards, analysis and sharing in metabolomics, particuarly through using the EMBL-EBI's MetaboLights repository. There will be a large practical component, where participants will learn through hands-on tutorials to use a workflow-based approach and compute infrastructure for data analysis and data submission, under the guidance of the lecturers and teaching assistants.

Audience

This course is aimed at researchers who are new to the field of metabolomics and wish to learn the basics. Perhaps you normally work in a different field and have had the opportunity to send off some samples for metabolite profiling but are unsure about how to process your results - this course is for you. We will primarily focus on a basic introduction to metabolomics with a worked example using a predesigned LC-MS analysis workflow. The course assumes little prior knowledge of using bioinformatics tools.

Syllabus, tools and resources

During this course you will learn about:

  • Basic metabolomics
  • Metabolomics resources: MetaboLights, Phenomenal, MetaboFlow
  • Metabolomics tools made available through standardized, customisable workflows

Outcomes

After this course you should be able to:

  • Discuss basic analytical methods in metabolomics, and factors that contribute to designing a successful metabolomics study
  • Use standardized workflows to perform basic metabolomics analysis
  • Access metabolomics databases
  • Discuss the issues of data sharing and data standards in metabolomics

Programme

Time Topic Trainer
Day 1 - Tue 20th March
12:00 Registration and lunch  
13:00 - 13:30 An introduction to the EMBL-EBI Alexandra Holinski
13:30 - 15:00 An introduction to Metabolomics Keeva Cochrane, Kenneth Haug, Venkata Chandrasekhar Nainala
15:00 - 15:30 Tea/coffee break  
15:30 - 16:30 An introduction to Metabolomics Resources & Data Sharing Keeva Cochrane, Kenneth Haug, Venkata Chandrasekhar Nainala
16:30 - 17:00 Interactive session Keeva Cochrane, Kenneth Haug, Venkata Chandrasekhar Nainala
18:00 Evening meal at Wellcome Genome Campus Conference Centre  
Day 2 - Wed 21th March
09:30 - 10:00 An introduction to MetaboLights Keeva Cochrane, Kenneth Haug, Venkata Chandrasekhar Nainala
10:00 - 10:30 Creating a MetaboLights workspace (hands-on session) Keeva Cochrane, Kenneth Haug, Venkata Chandrasekhar Nainala
10:30 - 11:00 Tea/coffee break  
11:00 - 12:00 Basic experimental design Ralf Weber / Nicola Gray
12:00 - 13:00 An introduction to analytical platforms; an overview Ralf Weber / Nicola Gray
13:00 - 14:00 Lunch  
14:00 - 14:30 An introdcution to analytcial platforms; LC-MS Ralf Weber / Nicola Gray
14:30 - 15:30 What is a workflow? Basics of metabolomics analysis Ralf Weber / Nicola Gray
15:30 - 16:00 Tea/coffee break  
16:00 - 17:30 Part 1 Hands-on standardized LC-MS workflow: working with raw data Ralf Weber / Nicola Gray
17.30 - 18.30 Networking/Posters Ralf Weber / Nicola Gray / Metabolomics team
18:30 Evening meal at Wellcome Genome Campus Conference Centre  
Day 3 - Thu 22th March
09:30 - 11:00 Introduction to data interpretation & statistics Etienne Thevenot
11:00 - 11:30 Tea/coffee break  
11:30 - 13:00 Part 2 Hands-on standardized LC-MS workflow: Data interpretation and statistical analysis Etienne Thevenot
13:00 - 14:00 Lunch  
14:00 - 15:30 Introduction to metabolite identification methods Ralf Weber
15:30 - 16:00 Tea/coffee break  
16:00 - 18:00 Part 3 Hands-on standardized LC-MS workflow: Metabolite identification Ralf Weber
18.30 Evening meal at Red Lion, Hinxton  
Day 4 - Fri 23th March
09:30 - 10:30 Introduction to network & pathway analysis Clement Frainay
10:30 - 11:00 Part 4 Hands-on standardized LC-MS workflow: Introduction to network & pathway analysis Clement Frainay
11:00 - 11:30 Tea/coffee break  
11:30 - 12:30 Part 4 cont. Hands-on standardized LC-MS workflow: Introduction to network & pathway analysis Clement Frainay
12:30 - 13:00 MetaboLights Keeva Cochrane, Kenneth Haug, Venkata Chandrasekhar Nainala
13:00 - 13:15 Wrap up & Course feedback Alexandra Holinski
13:15 - 14:00 Lunch  
14:00 Coach departs to Cambridge Train Station