Course detail

Bioinformatics

FEKT-ABINAcad. year: 2012/2013

The course is oriented to knowledge on biological databases, their structures and possibilities of their use. It studies information technology methods for analysis of sequences from biological databases including DNA and also study of genomics and proteomics.

Language of instruction

Czech

Number of ECTS credits

6

Mode of study

Not applicable.

Guarantor

prof. Ing. Valentine Provazník, Ph.D.

Department

Department of Biomedical Engineering (UBMI)

Offered to foreign students

Of all faculties

Learning outcomes of the course unit

Practical knowledge of methods of acquiring information from biological databases and methods of analysis of sequences form biological databases based on information technology tools.

Prerequisites

Knowledge at secondary school level and of completed subjects in the study area

Co-requisites

Not applicable.

Planned learning activities and teaching methods

Teaching methods depend on the type of course unit as specified in the article 7 of BUT Rules for Studies and Examinations.

Assesment methods and criteria linked to learning outcomes

Requirements for completion of a course are specified by a regulation issued by the lecturer responsible for the course and updated for every year.

Course curriculum

Biological databases. Analysis on the level of nucleotides. Analysis on the level of proteins. Comparison of pairs in sequences. The use of MATLAB and Perl for analysis of biological data.

Work placements

Not applicable.

Aims

Knowledge of information structure in biological databases and way of their use. Knowledge of methods of analysis of sequences acquired from biological databases.

Specification of controlled education, way of implementation and compensation for absences

Not applicable.

Recommended optional programme components

Not applicable.

Prerequisites and corequisites

Not applicable.

Basic literature

F. Cvrčková: Úvod do praktické bioinformatiky. Praha : Academia, 2006. ISBN 80-200-1360 (CS)
A. D. Baxevanis, B. F. F. Ouellette: Bioinformatics – A Practical Guide to the Analysis of Genes and Proteins. Wiley-Interscience, 2005. ISBN 0-471-47878-4 (EN)
Rosypal, S. Nový přehled biologie. Scientia, Praha 2003. ISBN 80-7183-268-5 (CS)

Recommended reading

Not applicable.

Classification of course in study plans

  • Programme BTBIO-A Bachelor's

    branch A-BTB , 2. year of study, summer semester, compulsory

  • Programme EEKR-CZV lifelong learning

    branch ET-CZV , 1. year of study, summer semester, compulsory

Type of course unit

 

Lecture

26 hours, optionally

Teacher / Lecturer

prof. Ewaryst Tkacz, Ph.D.,D.Sc.
doc. Mgr. Markéta Vaculovičová, Ph.D.

Syllabus

Biological databases: databases of sequences, database mapping, data mining from biological databases, genomic databases. Analysis of nucleotides: prediktivní metody v a. DNA sekvencí, prediktivní metody v a. RNA sekvencí, sekvenční polymorfismus. Analýza na úrovni proteinů: prediktivní metody v a. proteinových sekvencí, predikce struktury proteinů. Metody: porovnávání párů v sekvencích metodou BLAST a FASTA, vytváření a analýza násobných zarovnání sekvencí, metody sestavení zarovnání a jejich zakončení, fylogenetická analýza, výpočetní přístup ke komparativní genomice, proteomika a identifikace proteinů, exprese genů v DNA mikročipech. Využití jazyka MATLAB a Perl pro analýzy biologických dat.

Exercise in computer lab

26 hours, compulsory

Teacher / Lecturer

Ing. Vladimíra Kubicová
Ing. Denisa Maděránková, Ph.D.
prof. Ewaryst Tkacz, Ph.D.,D.Sc.

The other activities

13 hours, compulsory

Teacher / Lecturer

prof. Ing. Valentine Provazník, Ph.D.