| Responsible Department | Department of Basic Science and Environment | ||||||||||||||
| Research School | Metal Ions in Biological Systems (MIBS) | ||||||||||||||
| Course Dates | Starting date for next course: Will be announced on MIBS homepage http://www.mibs.life.ku.dk/ | ||||||||||||||
| Course Abstract | The main objective is to make bioinformatics a useful tool in biological research. | ||||||||||||||
| Course Registration | The course is held upon request. The course is offered under the Ph.D. school: Metal ions in Biological Systems (MIBS). The information will be announced on MIBS homepage http://www.mibs.life.ku.dk/ | ||||||||||||||
| Deadline for Registration | Will be announced on MIBS homepage http://www.mibs.life.ku.dk/ | ||||||||||||||
| Credits | 6 (ECTS) | ||||||||||||||
| Level of Course | PhD course | ||||||||||||||
| Organisation of Teaching | Three weeks workload - during one semester. The course credit is composed of 3 ECTS points in the theoretical part and 3 ECTS points in the experimental part. | ||||||||||||||
| Language of Instruction | English | ||||||||||||||
| Restrictions | Max 25 | ||||||||||||||
| Course Content | |||||||||||||||
| The main course covers the following topics: General introduction to relevant databases on the internet and how to search them. Sequence analysis and alignment of amino acid sequences and DNA sequences using different algorithms and evaluation of the results. Prediction of secondary structure elements and folding of proteins. Homology modelling and visualization of protein structures. Use of neural networks in protein structure predictions. Modelling of small biomolecules, Protein - ligand interaction and computer simulations for docking ligands. | |||||||||||||||
| Teaching and learning Methods | |||||||||||||||
| Lectures and weekly tutorials based on extensive individual studies on textbook materials and individual study activities including solving of assignments. Practical work on an agreed problem finished with a written report. The problem may be related to the candidates Ph.D research projects | |||||||||||||||
| Learning Outcome | |||||||||||||||
| The main objective is to introduce and make the concept of bioinformatics a useful tool in biological research for the participants. The students will after the course be able to use and explain the following terms: Amino acids sequence, DNA sequence, Sequence analysis, Secondary structures, Protein modelling, Structural homology, Substrate-docking, Structural databases, Neural networks. The students will after the course be able to use and explain the following methods: Sequence analysis and alignment of amino acids sequences and DNA sequences using different algorithms and evaluation of the results. Prediction of secondary structure elements and folding of proteins. Homology modelling and visualization of protein structures. Use of neural networks in protein structure predictions. Modelling of small biomolecules, Protein - ligand interaction and computer simulations for docking ligands. | |||||||||||||||
| Course Material | |||||||||||||||
| Textbook and notes | |||||||||||||||
| Course Coordinator | |||||||||||||||
| Morten Jannik Bjerrum, mobj@life.ku.dk, Department of Basic Sciences and Environment, Phone: 353-32452 | |||||||||||||||
| Other Lecturers | |||||||||||||||
| Lars Hemmingsen, Peter Thulstrup | |||||||||||||||
| Course Fee | |||||||||||||||
| Free of charge for Ph.D students under the open market for postgraduate courses in Denmark and from NOVA partners | |||||||||||||||
| Course Costs | |||||||||||||||
| It is expected that the students will use their own computer during the course. | |||||||||||||||
| Type of Evaluation | |||||||||||||||
| Oral examination and evaluation of project report | |||||||||||||||
| Work Load | |||||||||||||||
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| Other Remarks | |||||||||||||||
| Special prerequisites: B. Sc. course in Biochemistry or equivalent, and recommendable supplemented by B. Sc. courses in Chemistry and/or Biophysics | |||||||||||||||