Course details

Bioinformatics

BIF Acad. year 2017/2018 Summer semester 5 credits

Current academic year

This course introduces students to basic principles of molecular biology, present algorithms pro biological data analysis, describes their time complexity and shows direction how to design the new methods very effectively. Particularly, the following algorithms will be discussed: methods for sequence alignment, evolutionary models, construction of phylogenetic trees, algorithms for gene identification using machine learning and approaches for prediction of 2D and 3D protein structure. Lectures will be supplement with practical examples using available biological databases.

Guarantor

Martínek Tomáš, doc. Ing., Ph.D. (DCSY)

Language of instruction

Czech

Completion

Examination (written)

Time span

  • 26 hrs lectures
  • 12 hrs pc labs
  • 14 hrs projects

Assessment points

  • 58 pts final exam (written part)
  • 16 pts mid-term test (written part)
  • 12 pts labs
  • 14 pts projects

Department

Department of Computer Systems (UPSY)

Subject specific learning outcomes and competences

Students will be able to take advantages of large biological database and design new efficient algorithms for their analysis.

Understanding the relations between computers (computing) and selected molecular processes.

Learning objectives

To understand the principles of molecular biology. To perceive the basic used algorithms and to well informed about relevant biological databases. To be able to design new effective methods for biological data analysis.

Prerequisite knowledge and skills

There are no prerequisites

Syllabus of lectures

  1. Introduction to bioinformatics
  2. Basis of molecular biology
  3. Tools of molecular biology
  4. Biological databases
  5. Sequence alignment, dynamic programing, BLAST, FASTA
  6. Evolutionary models
  7. Construction of phylogenetic trees
  8. DNA assembling
  9. Genomics and gene searching
  10. Proteins and their prediction
  11. Computation of RNA secondary structure
  12. Proteomics, regulatory networks
  13. Polymorphism of genes

Syllabus of computer exercises

  1. Biological databases
  2. Sequence alignment
  3. Phylogenetic trees
  4. Protein structure analysis

Progress assessment

Study evaluation is based on marks obtained for specified items. Minimimum number of marks to pass is 50.

None.

Controlled instruction

Mid-term exam, project, computer lab assignments.

Course inclusion in study plans

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