Course detail

Advanced analysis of large genomic data

FEKT-DBT1Acad. year: 2019/2020

Representation of genomic and proteomic data. Deterministic and probabilistic models of sequence evolution. Methods of construction of large phylogenetic trees. Motifs searching in genomic and proteomic sequences.

Language of instruction

Czech

Number of ECTS credits

4

Mode of study

Not applicable.

Guarantor

prof. Ing. Valentine Provazník, Ph.D.

Department

Department of Biomedical Engineering (UBMI)

Learning outcomes of the course unit

Not applicable.

Prerequisites

Not applicable.

Co-requisites

Not applicable.

Planned learning activities and teaching methods

Not applicable.

Assesment methods and criteria linked to learning outcomes

Not applicable.

Course curriculum

1. Principles of representation of genomic data.
2. Deterministic descriptionof sequences in space.
3. The theory of fractals in the representation of sequences.
4. Deterministic models of sequence evolution.
5. Probabilistic models of sequence evolution.
6. Advanced principles of phylogenetics.
7. Methods of construction of large phylogenetic trees.
8. Quality in phylogenetics.
9. Principles of representation of proteomic data.
10. Advanced encoding of proteomic data.
11. Motif search in genomic and proteomic sequences.

Work placements

Not applicable.

Aims

The aim is to provide an overview of current topics in the field of biological sequence processing with a focus on deterministic and probabilistic methods.

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

Higgs, P. G., Attwood, T. K. Bioinformatics and Molecular Evolution. Blackwell Publishing, 2005.
Mandoiu, I. I., Zelikovski, A. Bioinformatics Algorithms. A John Wiley Publishing, 2008.
Snustad, D. P., Simmons, M. J. Genetika. Nakladatelství Masarykovy univerzity, Brno, 2009.
Yang, Z. Computational Molecular Evolution. Oxford University Press, 2006.

Recommended reading

Not applicable.

Classification of course in study plans

  • Programme BTB-PK Doctoral

    branch PK-BTB , 1 year of study, summer semester, elective specialised

  • Programme BTB-PP Doctoral

    branch PP-BTB , 1 year of study, summer semester, elective specialised

Type of course unit

 

Seminar

39 hod., optionally

Teacher / Lecturer

prof. Ing. Valentine Provazník, Ph.D.