Studying at the University of Verona
Here you can find information on the organisational aspects of the Programme, lecture timetables, learning activities and useful contact details for your time at the University, from enrolment to graduation.
Computational Biology (2017/2018)
Teaching code
4S003658
Credits
6
Language
English
Also offered in courses:
- Bioinformatics and Protein engineering - INGEGNERIA PROTEICA of the course Master's degree in Agri-Food Biotechnology
- Bioinformatics and Protein engineering - BIOINFORMATICA of the course Master's degree in Agri-Food Biotechnology
Scientific Disciplinary Sector (SSD)
BIO/10 - BIOCHEMISTRY
The teaching is organized as follows:
Modulo 2
Modulo 1
Learning outcomes
This course gives an introduction to molecular computational biology and to the rational design of proteins using computational techniques. The arguments of the course include: molecular dynamis simulation techniques and advanced protein bioinformatics concepts.
At the end of the course the student should be able to:
- Deep and critical understanding of a scientific article where computational techniques are used
- Introduce (in silico) mutants able to affect the protein structure and/or function
- Prepare and run molecular dynamis simulations.
Program
Part A – Bioinformatics
− Advanced Structural Bioinformatics
- Thermodynamic basis of the stability of folded biomolecular structure
− Molecular basis of human perception
Part B – Molecular Modeling
− Basic elements of molecular modeling
− Electrostatic modeling
− Energy minimization based on force fields
− Molecular dynamics: solution by using the open source NAMD and/or Gromacs codes
− Conformational analysis
Part C – Ligand-prtoein interactions
− Protein assembly (protein-protein complexes, protein-protein interactions in protein dimers, crystals): protein-protein docking algorithms and programs
− Ligand Protein interaction: docking algorithms and programs
− Projects: Drug and/or protein design
Bibliography
| Activity | Author | Title | Publishing house | Year | ISBN | Notes |
|---|---|---|---|---|---|---|
| Modulo 2 | Frishman, D., Valencia, Alfonso | Modern Genome Annotation | Springer | 2008 | ||
| Modulo 1 | Stefano Pascarella e Alessandro Paiardini | Bioinformatica | Zanichelli | 2011 | 9788808062192 |
Examination Methods
Written.
The examination is divide in two parts: the first consists in the presentation (in groups) of a scientific article in which state of the arte techniques are used.
The second part is a written examination with open questions regarding the arguments of the course.
