Teaching 2011
Update: 19.05.2017

Contents
Tutorials
MSc Bioinformatics (7307BPS), 2011
07.04.2011Molecular Graphics
Downloads: Handout, PyMOL tutorial (Wisconsin)
14.04.2011Comparative Modelling
Downloads: Handout, Modeller input file, Modeller alignment file
Lectures
MSc Bioinformatics (7307BPS), 2011
05.04.2011Protein Architecture
Downloads: Slides, Handout
12.04.2011Basic principles of molecular modelling
Downloads: Slides, MonteCarlo demo program, Case study
Workshop
Structural Chemistry Computing, 2011
Session 01, 24.05.2011Introduction to computing on Linux
Further reading, original literature and tutorials:
An Introduction to the Linux Command Shell For Beginners
Session 02, 02.06.2011Crystallographic model building with Coot
Further reading, original literature and tutorials:
Coot Tutorial, CCP4 School APS 2010
Session 03, 09.06.2011Diffraction data processing with MOSFLM
Further reading, original literature and tutorials:
MOSFLM help and guidance
Session 04, 16.06.2011Diffraction data processing with MOSFLM
Session 05, 23.06.2011Data reduction with Scala
Further reading, original literature and tutorials:
Data reduction: Pointless, Scala, Truncate by Phil Evans
Scaling using CCP4i
Session 06, 30.06.2011Data reduction with Scala
Session 07, 07.07.2011Molecular replacement with Phenix/Phaser
Further reading, original literature and tutorials:
CCP4wiki: Molecular replacement with Phaser
Session 08, 14.07.2011Electron 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, 21.07.2011Crystallographic model building with O
Further reading, original literature and tutorials:
A-Z of O
Session 10, 27.07.2011Introduction to email processing
Session 11, 28.07.2011Crystallographic model building with O
Session 12, 04.08.2011Assessing crystal structures of protein-ligand complexes
Session 13, 01.09.2011Word processing with OpenOffice
Session 14, 09.09.2011Molecular model building with O
Session 15, 15.09.2011Computation resources in the Structural Chemistry Program
Session 16, 16.09.2011Manual refinement with O
Session 17, 12.10.2011Diffraction data processing with MOSFLM
Further reading, original literature and tutorials:
MOSFLM help and guidance
Session 18, 13.10.2011Diffraction data processing with MOSFLM
Session 19, 18.10.2011Diffraction data processing with MOSFLM
Session 20, 27.10.2011Data reduction with Scala
Session 21, 03.11.2011Word processing with OpenOffice
Session 22, 09.11.2011Efficient literature search with PubMed
Further reading, original literature and tutorials:
PubMed Tutorial
Session 23, 17.11.2011Dynamic referencing with Bibus
Further reading, original literature and tutorials:
Bibus bibliographic database
Session 24, 01.12.2011Working with GNOME3
Session 25, 14.12.2011Structure-based sequence alignments
Structural Chemistry Methods, 2011
Session 01, 27.05.2011Single crystal mounting for cryogenic data collection
Session 02, 03.06.2011Basics of Crystallography I: Symmetry
Downloads: Handout
Session 03, 10.06.2011Basics of Crystallography II: Translational symmetry elements, Coordinate systems
Downloads: Handout
Session 04, 14.06.2011Differential Scanning Calorimetry
Further reading, original literature and tutorials:
Niesen et al. (2007) Nature Protocols 2, 2212-2221
Session 05, 17.06.2011Basics of Crystallography III: Point groups, holohedries and space groups
Downloads: Handout
Session 06, 24.06.2011Crystallographic calculations
Session 07, 01.07.2011Crystallographic exercises
Downloads: Handout
Session 08, 08.07.2011Basics of crystallography IV: X-rays, Bragg's law and reciprocal lattice
Downloads: Handout
Session 09, 15.07.2011Basics 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, 22.07.2011Basics of Crystallography VI: Intensities, Electron density
Downloads: Handout
Session 11, 29.07.2011Crystallographic exercises
Session 12, 05.08.2011Assessing crystal structures of protein-ligand complexes
Session 13, 02.09.2011Crystallographic refinement strategies
Session 14, 14.10.2011Basics of Crystallography I: Symmetry
Downloads: Handout
Session 15, 21.10.2011Basics of Crystallography II: Translational symmetry elements, Coordinate systems
Downloads: Handout
Session 16, 28.10.2011Crystallographic exercises
Session 17, 04.11.2011Basics of Crystallography III: Point groups, holohedries and space groups
Downloads: Handout
Session 18, 10.11.2011Crystallographic exercises
Session 19, 25.11.2011Basics of crystallography IV: X-rays, Bragg's la's law and reciprocal lattice
Downloads: Handout
Session 20, 08.12.2011Basics of Crystallography V: Ewald Sphere, Structure Factor Equation
Downloads: Handout
Session 21, 15.12.2011Basics of Crystallography VI: Intensities, Electron density
Downloads: Handout