Joint EMBL-EBI/Wellcome Trust Summer School in Bioinformatics
Venue:
European Bioinformatics Institute,
Cambridge, CB10 1SD
United Kingdom
See map: Google Maps
Date:
Monday, June 10, 2013 - Friday, June 14, 2013
Organizers:
Laura Emery
,
EMBL-EBI, UK
Teresa Attwood
,
University of Manchester
Francis Ouellette
,
Ontario Institute for Cancer Research, Canada
Vicky Schneider-Gricar
,
TGAC, UK
Admin support:
Registration Deadline:
Monday, April 8, 2013
Participation:
Open application with selection 
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.
What will I learn?
After this course you should be able to…
• Grasp the fundamental principles of sequence searching including the concepts of homology and similarity matrices
• Search for sequences effectively
• Understand the principles behind a range of methods for aligning sequences and their strengths and weaknesses
• Interpret alignments
• Construct alignments and annotate protein alignments functionally
• Annotate sequences manually using widely available tools and resources
• Understand the principles behind a range of methods for constructing phylogenies
• Construct phylogenies using free available software
• Interpret phylogenetic trees and appreciate their limitations
• Browse for and retrieve sequences using Ensembl
• Understand the major concepts in functional genomics including next-generation sequencing
• Browse, retrieve and analyse gene expression data
• Appreciate how our understanding of interactions and pathways has developed
• 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
Please note: Places will be awarded on merit and applicantsmust complete an application form as part of the registration process.
Scientific Programme Committee:
Terri Attwood, University of Manchester, UK
Terri Attwood, University of Manchester, UK
Laura Emery, EMBL-EBI, UK
John Marioni, EMBL-EBI, UK
Francis Ouellette, Ontario Institute for Cancer Research, Canada
Gabriella Rustici, EMBL-EBI, UK
John Marioni, EMBL-EBI, UK
Francis Ouellette, Ontario Institute for Cancer Research, Canada
Gabriella Rustici, EMBL-EBI, UK
Vicky Schneider, TGAC, UK
For further information regarding this course please see here: https://registration.hinxton.wellcome.ac.uk/display_info.asp?id=350
| 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 | |
Fees:
| Registration with Twin Accommodation | £495.00 |
| Registration with Single Accommodation | £608.00 |
Accommodation:
The fees include registration, meals and housing for the nights of the 10, 11, 12 and 13 June 2013.
If you require additional nights this will be at an additional cost, please contact the conference centre, reception@wtconference.org.uk directly for availability.
The fees include registration, meals and housing for the nights of the 10, 11, 12 and 13 June 2013.
If you require additional nights this will be at an additional cost, please contact the conference centre, reception@wtconference.org.uk directly for availability.
Applications:
Application deadline – 8th April 2013
Please note:Places on this Summer School are limited to 35 and will be awarded on merit. Applicants will be required to complete an online application form when registering.
You will be asked to complete the following information:
- Qualifications & Justification for attendance
- Any relevant publications
- A scientific outline of your current research project
- Details of your supervisor. Your supervisor will then receive an e-mail requesting a supporting statement to complete your application.
Registrations cannot be accepted without the supervisors supporting statement.
Please notify your supervisor that they will receive an e-mail from the Wellcome Trust asking them to complete your application which includes submitting a supporting statement
Bursaries or travel grants are not available for this year's Summer School in Bioinformatics.
Registration is now closed
The selection process will take place in April 2013.
Registration is now closed
The selection process will take place in April 2013.
Travel Visas
If you require a letter of acceptance in order to obtain a travel Visa please e-mail laura.hubbard@wtgc.org
Conference organiser contact details:
Laura Hubbard
E-mail: laura.hubbard@wtgc.org
Direct dial: +44 (0) 1223 495110
Fax: +44 (0) 1223 495023
Teresa Attwood
Laura Emery
Des Higgins
Jane Loveland
John Marioni
Francis Ouellette
William Pearson
Gabriella Rustici
Vicky Schneider-Gricar
Ran Ron Libeskind-Hadas
Emily Pritchard
Tags:
bioinformatics