Tantárgy adatlapja
The course is a theoretical and practical discussion of selected topics of bioinformatics with special regard to the analysis of DNA and protein sequences. The goal is to provide students a good, up to date understanding of the classical and contemporary issues of bioinformatics as well as knowledge of the main techniques and algorithms. The topics covered will include:
?Theory of bioinformatics data, core data types
?Core operations of bioinformatics: aggregation, comparison, annotation
?Concepts of similarity, different similarity searching techniques,
?Pairwise sequence alignment algorithms
?Multiple sequence alignment algorithms,
?BLAST algorithm, its evaluation, and practical applications
?Biological databases
?Fundamentals of phylogenetics analysis
?Next generation sequencing (NGS) techniques
?Genome assembly techniques and algorithms
?Genome annotation techniques and algorithms
?Fundamentals of metagenomics analysis and techniques
List of selected required and recommended literature:
1. Arthur M. Lesk: Introduction to Bioinformatics, 4e, Oxford University Press, 2013, ISBN 9780199651566
2. David W. Mount: Bioinformatics: Sequence and Genome Analysis, 2e, Cold Spring Harbor, 2004, ISBN 0- 879-69712-1
3. Molecular Data Analysis Using R (Csaba Ortutay, Zsuzsanna Ortutay) ISBN: 978-1-119-16502-6
4. Next-Generation Sequencing Data Analysis (Xinkun Wang; CRC Press 2016) ISBN-10: 1482217880
List of required competences:
a) knowledge
- understanding the chemical biology of the living matter (the DNA and protein level regulatory processes in living cells and organisms)
- knowing the diagnostic tools of living organisms (genome sequencing and sequencing based diagnostic techniques)
- knowing the data acquisition and data processing methods (of biotechnology and molecular medicine)
- knowledge of the informatics infrastructure relevant for biotechnology
- knowledge of bioinformatics applications in diagnostics and bioanalytic
b) skills
- can use and manage bioinformatics databases, and can apply modern database-management tools
- capability of using modern bioinformatics tools and data analysis pipelines
