EMBL-EBI: Exploring bioinformatics resources, sequence and genomic data
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Date:
Monday 18 - Tuesday 19 September 2017Venue:
The Francis Crick Institute - 1 Midland Road, London, NW1 1AT, United KingdomApplication opens:
Tuesday 23 May 2017Application deadline:
Tuesday 23 May 2017Participation:
By invitationContact:
Derrin CrawteRegistration closed
Course Overview
This course is divided into three sessions that introduce researchers to EMBL-EBI, major databases and tools for sequence searching.
Session one focuses on a general overview of the major bioinformatics resources and tools and EMBL-EBI and on helping researchers to identify resources to use in areas of interests. This will involve presentations and practical activities to give participants experiences on searching and retrieving data. Session two introduces sequence similarity searching and focuses on how to use tools like BLAST and PSI-Search to find homologous sequences in EMBL-EBI databases, including tips on which tool and database to use. Session three offers hands-on experiences in using the Ensembl/Ensembl Genomes browsers including viewing, manipulating genomic data and handling bulk data using BioMart.
Audience
The course has been designed for bench - based (wet-lab) researchers with minimum or no prior experience in bioinformatics and would like to explore, and use EMBL-EBI resources to handle and interpret the genomic and sequence data.
There are no specific prerequisites for the course, however an undergraduate level knowledge in life sciences would be beneficial.
Modules
- introduction-sequence-searching
- introduction-ensemblensembl-genomes
- introduction-embl-ebi-resources-and-tools
Learning outcomes
After this course you should be able to:
- Use a variety of EMBL-EBI tools and resources to search and link genomic and small molecule data from different databases.
- Perform and assess sequence searching against EMBL-EBI databases using a variety of tools such as BLAST and PSI-SEARCH.
- Access different data types available in the Ensembl/Ensembl Genomes, view and explore data in the Ensembl browser
Programme
| Time | Topic | Trainer |
|---|---|---|
| Day 1 - 18th September 2017 | ||
| 13:15 | Welcome and Introduction | Sarah Morgan |
| 13:30 - 15:00 | Introduction to EMBL-EBI resources | Sarah Morgan |
| 15:00 - 15:30 | Tea/coffee break | |
| 15:30 - 17:00 | EMBL-EBI search tool | Sarah Morgan |
| 17:00 | End of Day 1 | |
| Day 2 - 19th September 2017 | ||
| 09:00 - 10:30 | Introduction to Sequence searching | Andrew Cowley |
| 10:30 - 11:00 | Tea/coffee break | |
| 11:00 - 12:30 | Sequence searching | Andrew Cowley |
| 12:30 - 13:30 | Lunch | |
| 13:30 - 15:00 |
Introduction to the Ensembl/Ensembl Genomes Ensembl Gene and Transcript Annotation |
Benjamin Moore |
| 15:00 - 15:30 | Tea/coffee break | |
| 15:30 - 17:00 | Ensembl Gene and Transcript Annotation | Benjamin Moore |
| 17:00 |
Wrap-up and feedback End of course |
Benjamin Moore |
In association with
How to apply
Application deadline
23 May 2017
Organisers
Sarah Morgan - EMBL-EBI, UK
David Hudson - The Francis Crick Institute
Trainers
Sarah Morgan - EMBL-EBI, UK
Andrew Cowley - EMBL-EBI, UK
Benjamin Moore - EMBL-EBI, UK