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EmpaDec2008

Exploring Modular Protein Architecture

Wednesday December 3rd - Friday December 5th, 2008, EMBL Heidelberg

Aims to introduce experimental scientists to computational tools that help identify architecture modules (domains, motifs, disordered regions) in eukaryotic protein sequences. These tools can provide valuable insights into potential structure/function relationships that may provide a basis for novel experiments.

Contact Aidan Budd (budd@embl.de) or Toby Gibson (gibson@embl.de) for more information.

Schedule

Presentations will be available from here once we receive them all from the teachers.

Wednesday December 3rd

09.30 - 09.35 Welcome and Introductions Welcome Presentation - practical info, logistics, etc.
Aidan Budd
09.35 - 10.45 Introduction to Protein Modular Architecture and its Role in Cell Regulation
Toby Gibson
10.45 - 11.15 Practical Introduction to the Teaching Computers
Niall Haslam and Aidan Budd
11.15 - 11.45 Coffee Break
12.30 - 13.30 Lunch
13.30 - 14.30 Introduction to Bioinformatics Tools and Analyses (continued)
Aidan Budd and Venkata Satagopam
14.30 - 15.30 Sequence Database Similarity Searching
Nigel Brown
15.30 - 16.00 Coffee
16.30 - 17.30 Multiple Sequence Alignments (MSAs)
Aidan Budd
17.30 - 18.00 Reflect and OnTheFly: Automated Document Enrichment with Biological Information
Evangelos Pafilis
18.00 - 19.00 Presentation Preparation
  1. An opportunity for attendees, with the help of the instructors, to analyse their own sequences in preparation for final-day 10 minute presentations.
  2. Attendees placed in groups of 2 for the presentations - ideally one keen presenter per group whose system will be focused on
20.00 Evening Meal

Thursday December 4th

09.30 - 11.00 Protein Modular Architecture Analysis
Francesca Diella and Niall Haslam
11.00 - 11.30 Coffee
11.30 - 12.20 Protein Modular Architecture Analysis (continued)
Francesca Diella and Niall Haslam
12.20 - 12.30 Course Photo
12.30 - 13.30 Lunch
13.30 - 15.00 Protein Modular Architecture Analysis (continued)
Francesca Diella and Niall Haslam
15.00 - 15.30 Coffee Break
15.30 - 16.15 Integrating sequences, structures, and features with SRS-3D
Sean O'Donoghue and Andrea Schafferhans-Fuhrmann
16.15 - 17.45 Webservices/UTOPIA/CINEMA
Dave Thorne and Phil McDermott
17.45 - 19.00 Presentation Preparation
An opportunity for attendees, with the help of the instructors, to analyse their own sequences in preparation for final-day presentations.
20.00 Evening Meal

Friday December 5th

09.30 - 10.30 Structures of Protein-Protein Interactions
Damien Devos
10.30 - 11.00 Functional Association Networks - STRING, STITCH
Lars Juhl Jensen
11.00 - 11.30 Coffee Break
11.30 - 12.30 Functional Association Networks - STRING, STITCH
Lars Juhl Jensen
12.30 - 13.30 Lunch
13.30 - 14.00 Tips for investigating protein modular architecture in the lab
Toby Gibson
14.00 - 14.30 Comparing gene sets with Martini
Sean O'Donoghue and Theodoros Soldatos
14.30 - 15.00 Presentation Preparation
A chance to add slides based on the tools introduced today to your presentations
15.00 - 15.30 Coffee Break
15.30 - 18.00 Student Presentations
Pairs of students present an analysis of the modular architecture (and conclusions they draw concerning the function) of their proteins of interest, as prepared during the course.
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Page last modified on December 08, 2008, at 04:43 PM CET