Joint EMBL-EBI/Wellcome Trust Summer School in Bioinformatics

Date:

  Monday 10 June 2013

Venue: 

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

Application deadline: 

Monday 08 April 2013

Participation: 

Open application with selection

Contact: 

Scientific Conferences

Registration fee: 

£500

Registration closed

Overview

This Summer School is aimed at early-stage researchers who are embarking upon bioinformatics-based projects with little or no experience in computational biology. This course will provide early-stage graduate students and researchers with practical training in bioinformatics in the context of biological research and its theory. The course provides training on the fundamental concepts underpinning the topics of sequence searching, alignment, phylogenetics, functional genomics, interactions and pathways. This Summer School will involve hands-on training in using widely-available software packages and data resources; therefore we are limiting the number of participants to 35. Please note that the course will not cover aspects of computer programming and you should look at our other specialist courses if you want specific help with your current research project. 
 

Outcomes

After this course you should be able to…
• Search for sequences effectively 
• Interpret alignments
• Interpret phylogenetic trees and appreciate their limitations
• Browse, retrieve and analyse gene expression data 
• Know how to explore interactions and pathways using relevant tools and resources
• Use widely available public repositories and resources to help to answer biological questions

Programme

Time Topic Trainer
Day 1: Monday, 10 June 2013
12:00 Registration and Lunch  
13:00 Welcome and Introduction Laura Emery
13:30 Delegate presentations “About You and Your Expectations” Participants
15:00 Afternoon tea  
15:30 Bioinformatics in Modern Biology: Historical Perspective Teresa Attwood
16:15 Bioinformatics in Modern Biology: Historical Perspective William Pearson
17:00 Informal Q&A William Pearson, Teresa Attwood, Laura Emery
17:15 Poster session with cheese and wine Participants
19:30 Dinner  
Day 2: Tuesday, 11 June 2013
08:30 Protein Sequence Comparison and Protein Evolution (What BLAST does/Why BLAST works) William Pearson
10:00 Morning coffee  
10:30 Sequence Searching, Hands On William Pearson
12:15 Q&A William Pearson
12:30 Lunch  
13:30 Alignment Methods Des Higgins
14:30 Afternoon tea  
15:00 Understanding Multiple Sequence Alignments Teresa Attwood
15:45 Alignment Hands-on with Utopia Teresa Attwood
17:15 Bring-along-a-gene data analysis William Pearson, Des Higgins, Teresa Attwood, Laura Emery
18:15 Informal Q&A William Pearson, Des Higgins, Teresa Attwood, Laura Emery
18:30 Close  
19:00 Dinner  
Day 3: Wednesday, 12 June 2013
08:30 How are Phylogenetic Trees Constructed? Ran Libeskind-Hadas
09:30 Constructing Phylogenetic Trees (hands on) Ran Libeskind-Hadas
11:00 Coffee break  
11:30 Interpreting Phylogenetic Trees (lecture and activities) Ran Libeskind-Hadas and Vicky Schneider-Gricar
13:00 Lunch  
14:00 Manual Annotation Jane Loveland
15:00 Afternoon tea  
15:30 Exploring Genes and Genomes using Ensembl (hands on) Emily Pritchard
17:30 Informal Q&A Ran Libeskind-Hadas, Vicky Schneider-Gricar, Jane Loveland, Emily Pritchard
17:45 Problem-solving activity Vicky Schneider-Gricar 
19:00 Dinner  
Day 4: Thursday, 13 June 2013
09:00 Overview of Functional Genomics (lecture) Gabriella Rustici
09:30 NGS Functional Genomics (lecture) John Marioni
10:30 Coffee break  
11:00 Functional Genomics hands on (with NGS focus) Gabriella Rustici
12:30 Lunch  
13:30 Molecular Interactions and Pathways Francis Ouellette
14:30 Coffee break  
15:00 Exploring Interactions & Pathways (hands-on) Pablo Porras Millan /Sandra Orchard
17:00 Quiz and Informal Q&A John Marioni, Gabriella Rustici, Francis Ouellete, Laura Emery
17:15 Close  
18:00 Drinks Reception  
19:00 Conference Dinner  
Day 5: Friday, 14 June 2013
09:00 Discussion of Quiz All speakers
09:45 Introduction to other Resources at EBI Laura Emery
11:00 Coffee break  
11:30 Wrap up, Q&A and Course Feedback All speakers
12:00 Lunch  
13:00 Close  
European Bioinformatics Institute (EMBL-EBI)
Wellcome Genome Campus Hinxton Cambridge CB10 1SD United Kingdom

In association with

How to apply

Registration is now closed

Application deadline

08 April 2013

Number of places

30 places

Registration closed

Organisers

Laura Emery

Teresa Attwood - University of Manchester

Francis Ouellette - Ontario Institute for Cancer Research, Canada

Gabriella Rustici - University of Cambridge, UK

John Marioni

Trainers

Teresa Attwood - University of Manchester

Des Higgins - University College Dublin, Ireland

Francis Ouellette - Ontario Institute for Cancer Research, Canada

Jane Loveland - Wellcome Trust Sanger Institute, UK

Emily Perry - EMBL-EBI, UK

William Pearson - Virginia University, USA

Ran Ron Libeskind-Hadas - Harvey Mudd College, USA

Laura Emery - EMBL-EBI, UK

John Marioni - EMBL-EBI, UK

Gabriella Rustici - University of Cambridge, UK

Pablo Porras Millan - EMBL-EBI, UK

Sandra Orchard - EMBL-EBI, UK