MSc Bioinformatics (7307BPS), 2011 |
05.04.2011 | Protein Architecture |
| Downloads: Slides, Handout |
12.04.2011 | Basic principles of molecular modelling |
| Downloads: Slides, MonteCarlo demo program, Case study |
Structural Chemistry Computing, 2011 |
Session 01, 24.05.2011 | Introduction to computing on Linux |
| Further reading, original literature and tutorials: |
| An Introduction to the Linux Command Shell For Beginners |
Session 02, 02.06.2011 | Crystallographic model building with Coot |
| Further reading, original literature and tutorials: |
| Coot Tutorial, CCP4 School APS 2010 |
Session 03, 09.06.2011 | Diffraction data processing with MOSFLM |
| Further reading, original literature and tutorials: |
| MOSFLM help and guidance |
Session 04, 16.06.2011 | Diffraction data processing with MOSFLM |
Session 05, 23.06.2011 | Data reduction with Scala |
| Further reading, original literature and tutorials: |
| Data reduction: Pointless, Scala, Truncate by Phil Evans |
| Scaling using CCP4i |
Session 06, 30.06.2011 | Data reduction with Scala |
Session 07, 07.07.2011 | Molecular replacement with Phenix/Phaser |
| Further reading, original literature and tutorials: |
| CCP4wiki: Molecular replacement with Phaser |
Session 08, 14.07.2011 | Electron density visualisation with Coot |
| Further reading, original literature and tutorials: |
| Blow, DM (2002) Outline of Crystallography for Biologists, Oxford University Press, chapter 11. |
Session 09, 21.07.2011 | Crystallographic model building with O |
| Further reading, original literature and tutorials: |
| A-Z of O |
Session 10, 27.07.2011 | Introduction to email processing |
Session 11, 28.07.2011 | Crystallographic model building with O |
Session 12, 04.08.2011 | Assessing crystal structures of protein-ligand complexes |
Session 13, 01.09.2011 | Word processing with OpenOffice |
Session 14, 09.09.2011 | Molecular model building with O |
Session 15, 15.09.2011 | Computation resources in the Structural Chemistry Program |
Session 16, 16.09.2011 | Manual refinement with O |
Session 17, 12.10.2011 | Diffraction data processing with MOSFLM |
| Further reading, original literature and tutorials: |
| MOSFLM help and guidance |
Session 18, 13.10.2011 | Diffraction data processing with MOSFLM |
Session 19, 18.10.2011 | Diffraction data processing with MOSFLM |
Session 20, 27.10.2011 | Data reduction with Scala |
Session 21, 03.11.2011 | Word processing with OpenOffice |
Session 22, 09.11.2011 | Efficient literature search with PubMed |
| Further reading, original literature and tutorials: |
| PubMed Tutorial |
Session 23, 17.11.2011 | Dynamic referencing with Bibus |
| Further reading, original literature and tutorials: |
| Bibus bibliographic database |
Session 24, 01.12.2011 | Working with GNOME3 |
Session 25, 14.12.2011 | Structure-based sequence alignments |
Structural Chemistry Methods, 2011 |
Session 01, 27.05.2011 | Single crystal mounting for cryogenic data collection |
Session 02, 03.06.2011 | Basics of Crystallography I: Symmetry |
| Downloads: Handout |
Session 03, 10.06.2011 | Basics of Crystallography II: Translational symmetry elements, Coordinate systems |
| Downloads: Handout |
Session 04, 14.06.2011 | Differential Scanning Calorimetry |
| Further reading, original literature and tutorials: |
| Niesen et al. (2007) Nature Protocols 2, 2212-2221 |
Session 05, 17.06.2011 | Basics of Crystallography III: Point groups, holohedries and space groups |
| Downloads: Handout |
Session 06, 24.06.2011 | Crystallographic calculations |
Session 07, 01.07.2011 | Crystallographic exercises |
| Downloads: Handout |
Session 08, 08.07.2011 | Basics of crystallography IV: X-rays, Bragg's law and reciprocal lattice |
| Downloads: Handout |
Session 09, 15.07.2011 | Basics of Crystallography V: Ewald Sphere, Structure Factor Equation |
| Downloads: Handout |
| Further reading, original literature and tutorials: |
| University of Cambridge: Reciprocal Space and Ewald Sphere |
Session 10, 22.07.2011 | Basics of Crystallography VI: Intensities, Electron density |
| Downloads: Handout |
Session 11, 29.07.2011 | Crystallographic exercises |
Session 12, 05.08.2011 | Assessing crystal structures of protein-ligand complexes |
Session 13, 02.09.2011 | Crystallographic refinement strategies |
Session 14, 14.10.2011 | Basics of Crystallography I: Symmetry |
| Downloads: Handout |
Session 15, 21.10.2011 | Basics of Crystallography II: Translational symmetry elements, Coordinate systems |
| Downloads: Handout |
Session 16, 28.10.2011 | Crystallographic exercises |
Session 17, 04.11.2011 | Basics of Crystallography III: Point groups, holohedries and space groups |
| Downloads: Handout |
Session 18, 10.11.2011 | Crystallographic exercises |
Session 19, 25.11.2011 | Basics of crystallography IV: X-rays, Bragg's la's law and reciprocal lattice |
| Downloads: Handout |
Session 20, 08.12.2011 | Basics of Crystallography V: Ewald Sphere, Structure Factor Equation |
| Downloads: Handout |
Session 21, 15.12.2011 | Basics of Crystallography VI: Intensities, Electron density |
| Downloads: Handout |