Graduate Course in Structural Bioinformatics 23-26 September 2008 This is an intensive one-week PhD course. In this course we consider "structural bioinformatics" to be the development and application of computational methods (i) to analyse and predict the conformations of biological macromolecules and (ii) to study relationships between macromolecular structure and function. Protein molecules will be in focus, but other biological molecules will also be studied. |
The aims of this course are:
At the end of this course, students should:
Protein, nucleic acid and carbohydrate conformation; levels of protein structure; secondary structure assignment, including DSSP; assessing stereochemical quality; factors affecting protein stability; structure classification hierarchies; three-dimensional structures of biological macromolecules; contact maps and distance maps; domain assignment; structure superposition; structure comparison; comparative protein modelling; protein fold recognition; Monte Carlo methods and simulated annealing; ab initio protein structure prediction; protein shape representation; protein-ligand interactions and applications in drug design; conformational analysis; protein-protein docking; modelling transmembrane proteins, carbohydrates and RNA; applications of structural bioinformatics.
Date | Time | Place | Activity |
---|---|---|---|
Tuesday 23 September 2008 | 10:15-11:00 | 6128 | Lecture: Protein structure |
Tuesday 23 September 2008 | 11:00-12:00 | 6128 | Lecture: Protein structure classification |
Tuesday 23 September 2008 | 13:15-15:00 | 6128 | Practical: Protein structure |
Tuesday 23 September 2008 | 15:30-16:45 | 6128 | Lecture: Macromolecular structure determination |
Date | Time | Place | Activity |
Wednesday 24 September 2008 | 09:00-09:45 | 6128 | Lecture: Transformations, superpostion and structural alignment |
Wednesday 24 September 2008 | 10:00-11:45 | 6128 | Practical: Protein structure and function |
Wednesday 24 September 2008 | 13:15-15:00 | 6128 | Lecture: Comparative modelling; fold recognition |
Wednesday 24 September 2008 | 15:15-17:00 | 6128 | Practical: Comparative modelling |
Date | Time | Place | Activity |
Thursday 25 September 2008 | 09:15-10:30 | 6128 | Lecture: New fold methods for protein modelling |
Thursday 25 September 2008 | 10:45-11:45 | 6128 | Lecture: Molecular surfaces and protein-protein docking |
Thursday 25 September 2008 | 13:15-14:30 | 6128 | Practical: Molecular surfaces and protein-protein docking |
Thursday 25 September 2008 | 15:00-16:00 | 4128 | Lecture: Protein design |
Date | Time | Place | Activity |
Friday 26 September 2008 | 09:00-10:00 | 6128 | Lecture: Membrane proteins |
Friday 26 September 2008 | 10:00-11:45 | 6128 | Practical: Membrane proteins |
Friday 26 September 2008 | 14:00-14:30 | 6128 | Lecture: MHC-peptide interactions |
Friday 26 September 2008 | 14:30-16:00 | 6128 | Discussion about practical work | Course ends |
The course take place in the Department of Computer Science and Engineering at Rännvägen 6B on the main Chalmers campus.
The easiest way to find room 6128 is to enter the building at Rännvägen 6B, take the stairs (or lift) to level 6, then through the glass doors, and room 6128 is on your right (behind the room with the photocopier).
This course is arranged in cooperation with the following graduate education programmes: