EMBL-EBI Workshop: Bioinformatics resources for protein biology

Date:

 Monday 29 April Wednesday 1 May 2019

Venue: 

University of Cambridge - Downing Site, Cambridge,  CB2 3AR, United Kingdom

Application opens: 

Wednesday 06 March 2019

Application deadline: 

Sunday 28 April 2019

Participation: 

First come, first served

Contact: 

Charlotte Pearton

Registration fee: 

Free for Uni. Cambridge students and staff, see "How to apply" for more details

Course 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.

Workshop topics:

Day 1: Where can I find protein sequence, classification and comparison information?
Day 2: How do I choose a “good” protein structure and what can I learn from it?
Day 3: 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 participants should have an undergraduate level understanding of biology. Those who are graduate students, postdocs and staff members from the University of Cambridge, affiliated institutions and other external Institutions or individuals, are invited to apply.

Modules

  • protein-sequence-databases
  • protein-families-and-functional-classification-interpro-pfam-hmmer
  • interactions-and-pathways
  • finding-and-analysing-macromolecular-structures-pdbe

Learning 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

Day 1 – Monday 29 April 2019
Where can I find protein sequence, classification and comparison information?
09:30-11:00 UniProt Kate Warner
11:00-11:15 Tea/Coffee Break
11:15-12:45 UniProt Kate Warner
12:45-13:30 Lunch (not provided)
13:30-15:15 HMMER Sara El-Gebali
15:15-15:30 Tea/Coffee Break
15:30-17:00 InterPro Lorna Richardson
Day 2 – Tuesday 30 April 2019
How do I choose a "good" protein structure and what can I learn from it?
09:00-11:00 PDBe: Introduction and search Matthew Conroy / Deepti Gupta
11:00-11:15 Tea/Coffee Break
11:15-12:30 PDBe: Entry pages and validation Matthew Conroy / Deepti Gupta
12:30-13:15 Lunch (not provided)
13:15-14:30 PDBe tools Matthew Conroy / Deepti Gupta
14:30-14:45 Tea/Coffee Break
14:45-17:00 Electron Microscopy DataBank (EMDB) Osman Salih
Day 3 – Wednesday 1 May 2019
What interactions, complexes and pathways is my protein involved in?
09:30-11:00 Molecular Interactions Birgit Meldal
11:00-11:15 Tea/Coffee Break
11:15-12:45 Molecular Interactions Birgit Meldal
12:45-13:30 Lunch (not provided)
13:30-15:00 Reactome Thawfeek Mohamed Varusai
15:00-15:15 Tea/Coffee Break
15:15-16:30 Reactome Thawfeek Mohamed Varusai
16:30-16:45 Course wrap-up and feedback Thawfeek Mohamed Varusai