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Training

Exploring Protein Modular Architecture

Wednesday January 30th - Friday February 1st, 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 or Toby Gibson for more information.

Some photos taken during the teaching (thanks to Sebastien)

Schedule

Notes on using the computers

Wednesday Jan 30th

10.00 - 11.00 Introduction to Protein Modular Architecture and its role in cell regulation
Toby Gibson
11.00 - 12.30 Keyword Searching of Databases - SRS
12.30 - 13.30 Lunch Break
13.30 - 15.00 Sequence Database Similarity Searches - BLAST
15.00 - 16.00 Automatic annotation of biological entities in webpages: Reflect
16.00 - 17.30 Exploring protein structure using SRS 3D

Thursday Jan 31st

10.00 - 11.30 Predicting Globular Domains - PFAM, SMART, CDD
11.30 - 12.30 Predicting Native Disorder - IUPred, DisProt, GlobPlot
12.30 - 13.30 Lunch Break
13.30 - 15.00 Identifying potential ELMs - ELM, PhosphoELM
15.00 - 17.00 Multiple Sequence Alignment

Friday February 1st

10.00 - 12.30 Structure of Protein-Protein Interactions - PyMOL, PDB, MSD
12.30 - 13.30 Lunch Break
13.30 - 15.30 Functional Association Networks - STRING, STITCH
15.30 - 17.00 Student Team Presentations

Data and sequences for exercises

Links to relevant websites and resources

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Page last modified on January 30, 2008, at 10:38 AM CET