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| Semester | spring semester 2017 |
| Course frequency | Every 2nd spring sem |
| Lecturers |
Markus Meuwly (m.meuwly@unibas.ch)
Torsten Schwede (torsten.schwede@unibas.ch, Assessor) |
| Content | The course will cover concepts of protein structure bioinformatics, modelling and simulation methods, their application to protein structures and their interactions with other molecules. In particular: protein structure comparison and classification, principles of molecular inter-actions, molecular mechanics simulations, in silico and structure based drug design, de novo and comparative protein modelling techniques. During the course, the students will gain an overview of the theoretical concepts underlying modelling and simu¬lation methods. The theoretical lectures are complemented by practical tasks, aiming to challenge the level of understanding of the students, e.g. by programming low-level implemen¬tations of certain algorithms. Practical applications of modelling and simulation methods will involve critical evaluation and assessment of the reliability and accuracy of the applied methods. |
| Learning objectives | During the course, the students will gain in depth understanding of the theoretical concepts underlying modelling and simulation methods. The theoretical lectures are complemented by practical tasks, aiming to challenge the level of understanding of the students (e.g. programming low level implementations of certain algorithms without using specific libraries or tool kits). Experience in handling and manipulation of different three dimensional representations and concepts, including: atomic coordinates, atomistic and molecular physico chemical properties, molecular geometries, density maps, molecular descriptors. Experience in the practical applications of modelling and simulation methods, and their limitations. Practical exercises involve critical evaluation / assessment of the confidence and accuracy of the applied methods. http://www.biozentrum.unibas.ch/education/phd/graduate-program/cycle-e/ |
| Comments | Exercises: on agreement with exercise supervisors. ADAM workspace Pfad:https://adam.unibas.ch/goto.php?target=crs_125170&client_id=adam |
| Weblink | ADAM - Workspace |
| Admission requirements | Prerequisites: Knowledge in structural biology, e.g. Bio4 ("Strukturbiologie") and Blockkurs or equivalent. Basic programming skills (preferably in Python). |
| Language of instruction | English |
| Use of digital media | Online, optional |
| Interval | Weekday | Time | Room |
|---|
No dates available. Please contact the lecturer.
| Modules |
Cycle E: Computational and Systems Biology (Master Molecular Biology) Doctorate Biochemistry: Recommendations (PhD subject: Biochemistry) Doctorate Biophysics: Recommendations (PhD subject: Biophysics) Doctorate Cell Biology: Recommendations (PhD subject: Cell Biology) Doctorate Computational Biology: Recommendations (PhD subject: Computational Biology) Doctorate Genetics: Recommendations (PhD subject: Genetics) Doctorate Microbiology: Recommendations (PhD subject: Microbiology) Doctorate Molecular Biology: Recommendations (PhD subject: Molecular Biology) Doctorate Neurobiology: Recommendations (PhD subject: Neurobiology) Doctorate Pharmacology: Recommendations (PhD subject: Pharmacology) Doctorate Structural Biology: Recommendations (PhD subject: Structural Biology) Module Specialisation: Molecular Biology (Master Nanosciences) |
| Assessment format | continuous assessment |
| Assessment details | The practical weekly exercises will be evaluated. |
| Assessment registration/deregistration | Reg.: course registration, dereg: cancel course registration |
| Repeat examination | no repeat examination |
| Scale | Pass / Fail |
| Repeated registration | as often as necessary |
| Responsible faculty | Faculty of Science, studiendekanat-philnat@unibas.ch |
| Offered by | Departement Biozentrum |