Bioinformatics Resources for Protein Biology

Date:

 Tuesday 6 Thursday 8 March 2018

Venue: 

European Bioinformatics Institute (EMBL-EBI) - Training Room 2 - Wellcome Genome Campus, Hinxton, Cambridge,  CB10 1SD, United Kingdom

Application opens: 

Thursday October 12 2017

Application deadline: 

Friday February 02 2018

Participation: 

First come, first served

Contact: 

Frank O’Donnell

Registration fee: 

£120

Overview

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.

Workshop topics

Day 1 (6th March): Where can I find protein sequence, classification and comparison information?

Day 2 (7th March): How do I choose a “good” protein structure and what can I learn from it?

Day 3 (8th March): What interactions, complexes and pathways is my protein involved in?

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

Day 1: UniProtKB, InterPro, HMMER

Day 2: PDBe, EM DataBank

Day 3: IntAct, Complex Portal, Reactome

Outcomes

At the end of the workshop 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

Time Topic Trainer
Day 1 - Where can I find protein sequence, classification and comparison information?
9:00 - 9:15 Registration  
9:15 - 9:30 Welcome and Course introduction Sarah Morgan
9:30 - 11:00 UniProt Sangya Pundir
11:00 - 11:15 Tea/coffee break  
11:15 - 12:45 UniProt Klemens Pichler
12:45 - 13:30 Lunch  
13:30 - 15:15 HMMER Sara El-Gebali
15:15 - 15:30 Tea/coffee break  
15:30 - 17:00 InterPro Lorna Richardson
17:15 Bus to Cambridge Train Station  
Day 2 - How do I choose a "good" protein structure and what can I learn from it?
09:00 - 10:30 Introduction to protein structure and the PDBe David Armstrong
10:30 - 10:45 Tea/coffee break  
10:45 - 12:00 Making the most of the PDBe pages David Armstrong
12:00 - 12:45 Lunch  
12:45 - 15:00 PDBe tools David Armstrong
15:00 - 15:15 Tea/coffee break  
15:15 - 17:00 Electron Microscopy DataBank (EMDB) Ardan Patwardhan
17:15 Bus to Cambridge Train Station  
Day 3 - 
09:00 - 11:00 IntAct Birgit Meldal
11:00 - 11:15 Tea/coffee break  
11:15 - 12:30 Complex Portal Birgit Meldal
12:30 - 13:30 Lunch  
13:30 - 15:00 Reactome Thawfeek Mohamed Varusai
15:00 - 15:15 Tea/coffee break  
15:15 - 16:45 Reactome Thawfeek Mohamed Varusai
16:45 - 17:00 Wrap up and feedback Sarah Morgan
17:15 End of course; bus to Cambridge Train Station