Bioinformatics Resources for Protein Biology

Date:

 Tuesday 10 Thursday 12 March 2020

Venue: 

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

Application opens: 

Monday 09 September 2019

Application deadline: 

Friday 31 January 2020

Participation: 

First come, first served

Contact: 

Rebecca Nicholl

Registration fee: 

£170.00

Overview

Are you aware of the wide range of protein data resources that can easily be accessed and explored to enhance your research? Do you want to know more about the sequence of your protein and its functions? Wondered whether a structure of your protein exists and how to explore it? Want to know more about the potential complexes and reaction pathways your protein of interest is involved in, giving you a better overview of its biological context?

This three day workshop will introduce you to data resources and tools developed by EMBL-EBI that can help you in your protein studies. Each day will focus on a particular protein topic, with the aim of helping you get more from your data and also to explore publically-available data that can further support your research.

Audience

This workshop is aimed at anyone interested in finding out more about protein biology. No prior experience of bioinformatics is required, but an undergraduate level understanding of biology would be of benefit.

Syllabus, tools and resources

During this course you will learn about:

Day 1: UniProtKB, InterPro, HMMER
Day 2: PDBe, EMDB, EMPIAR
Day 3: IntAct, Complex Portal, Reactome

Outcomes

After this course you should be able to: 

  • Access and explore a range of appropriate protein resources
  • Use these resources to retrieve relevant protein information
  • Apply the information you have discovered in your research

Programme

Day 1 – Tuesday 10 March 2020
Where can I find protein sequence, classification and comparison information?
08:00 Bus from Cambridge train station  
09:00-09:15 Arrival and registration  
09:15-10:00


Introduction to EMBL-EBI and overview of the course

Alex Holinski
10:00-11:00

UniProt

Rossana Zaru & Hema Bye-A-Jee
11:00-11:30 Coffee break  
11:30-13:00

UniProt

Rossana Zaru & Hema Bye-A-Jee
13:00-14:00 Lunch  
14:00-15:00 Sequence classification (InterPro, Pfam, HMMER) Typhaine Paysan-Lafosse
15:00-15:30 Coffee break  
15:30-16:30 Sequence classification (InterPro, Pfam, HMMER) Typhaine Paysan-Lafosse
16:30-17:30 Explore and apply today's learning  
18:00 Dinner at Hinxton Hall  
19:45 Bus to Cambridge Station  
Day 2 – Wednesday 11 March 2019
How do I choose a "good" protein structure and what can I learn from it?
08:00 Bus from Cambridge train station  
09:00-10:30 PDBe David Armstrong
10:30-11:00 Coffee break  
11:00-12:30 PDBe David Armstrong
12:30-13:30 Lunch  
13:30-14:30 EMDB/EMPIAR Osman Salih
14:30-15:00 Coffee break  
15:00-15:45 EMDB/EMPIAR Osman Salih
15:45-17:00 Explore and apply today's learning  
17:15 Bus to Cambridge train station  
Day 3 – Thursday 12 March 2020
What interactions, complexes and pathways is my protein involved in?
08:00 Bus from Cambridge train station  
09:00-10:30 Molecular Interactions Birgit Meldal
10:30-11:00 Coffee break  
11:00-12:30 Molecular Interactions Birgit Meldal
12:30-13:30 Lunch  
13:30-14:30 Reactome Thawfeek Mohamed Varusai
14:30-15:00 Coffee break  
15:00-16:00 Reactome Thawfeek Mohamed Varusai
16:00-17:00 Explore and apply today's learning  
17:00-17:15 Wrap-up and feedback Alex Holinski
17:30 Bus to Cambridge station