PřF:C2138 Advanced bioinformatics - Course Information

C2138 Advanced bioinformatics

Extent and Intensity

2/0/0. 2 credit(s) (plus extra credits for completion). Type of Completion: zk (examination).

Teacher(s)

prof. RNDr. Michaela Wimmerová, Ph.D. (lecturer)
Mgr. Josef Houser, Ph.D. (lecturer)
Mgr. Lenka Malinovská, Ph.D. (lecturer)

Guaranteed by

prof. RNDr. Michaela Wimmerová, Ph.D.
National Centre for Biomolecular Research – Faculty of Science
Supplier department: National Centre for Biomolecular Research – Faculty of Science

Timetable

Mon 1. 3. to Fri 14. 5. Tue 13:00–14:50 C04/118

Prerequisites

C2135 Bioinformatics for practice && NOW( C2139 Advanced bioinformatics - seminary )
C2130 Introduction to chemoinformatics and bioinformatics C2135

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

• Bioinformatics (programme PřF, B-BIC)
• Biomedical bioinformatics (programme PřF, N-MBB)

Course objectives

The aim of this course is to teach students how to:
understand and explain basic terms in the field of bioinformatics;
compare large databases of sequences and extract data;
predict 2D and 3D structure of proteins and nucleic acids;
predict posttranslational modifications;

Learning outcomes

At the end of the course students should: 1) Obtain basic knowledge of bioinformatics. Students should be able to: 1) Process bioinformational data. 2) Predict basic properties of biomacromolecules. 3) Utilize bioinformational tools for solving of biological problems.

Syllabus

• Summary of basic bioinformatical methods and tools for protein studies.
  Summary of basic bioinformatical methods and tools for amino acid and saccharide studies.
  Phylogenetic analysis, phylogenetic trees, principals.
  Prediction of 2d, 3d protein structure, Protein data bank (PDB) , 3D structure validation, origin of mistakes in structural data.
  Prediction tools for nucleic acids. 2D and 3D structure, repetitions, importance.
  Metabolic pathways alignment, metabolome.
  Gene expression studies by bioinformatics. Promotor prediction, non-coding regions, transcription factors.
  Analysis of sequencing outputs.
  Genome annotation. Automatic annotation, its correctness, sources of mistakes. Posttranslational modifications and their importance. Prediction algorithms.
  Bioinformatical potential of saccharides, glycome.
  Virtual screening in bioinformatics, specificities of databases, protein binding sites.
  

Literature

• HODGMAN, T. Charlie, Andrew FRENCH and David R. WESTHEAD. Bioinformatics. 2nd ed. Milton Park, Abingdon: Taylor & Francis, 2010, x, 340. ISBN 9780415394949. info
• ZVELEBIL, Marketa J. and Jeremy O. BAUM. Understanding bioinformatics. New York, N.Y.: Garland Science, 2008, xxiii, 772. ISBN 9780815340249. info
• MOUNT, David W. Bioinformatics : sequence and genome analysis. 2nd ed. Cold Spring Harbor, N.Y.: Cold Spring Harbor Laboratory Press, 2004, xii, 692. ISBN 0879697121. info

Teaching methods

lectures with practical demonstrations

Assessment methods

oral exam

Language of instruction

Czech

Follow-Up Courses

• C2139 Advanced bioinformatics - seminary

Further comments (probably available only in Czech)

Study Materials
The course is taught annually.

Listed among pre-requisites of other courses

• C2139 Advanced bioinformatics - seminary
  NOW(C2138)  

• Enrolment Statistics (Spring 2021, recent)
  
• Permalink: https://is.muni.cz/course/sci/spring2021/C2138