460-4100/01 – Algorithms for Bioinformatics (ABI)
Gurantor department | Department of Computer Science | Credits | 4 |
Subject guarantor | prof. RNDr. Václav Snášel, CSc. | Subject version guarantor | Ing. Michal Vašinek, Ph.D. |
Study level | undergraduate or graduate | Requirement | Optional |
Year | 2 | Semester | winter |
| | Study language | Czech |
Year of introduction | 2015/2016 | Year of cancellation | 2022/2023 |
Intended for the faculties | FEI | Intended for study types | Follow-up Master |
Subject aims expressed by acquired skills and competences
Graduate Course gives the following knowledge and skills:
basic theoretical background for Bioinformatics,
implementation and application of selected methods for DNA, RNA, proteins analysis.
practical application to real data.
Data visualization.
Teaching methods
Lectures
Tutorials
Summary
Students, during the course, are introduced to the basic approaches, methods and algorithms from bioinformatics.
The lectures will provide the necessary amount of theory so that it can be applied during the individual work of the students on the tutorials.
Tutorials will provide space for discussing the problems, showing practical tasks and exercising on simple examples.
Compulsory literature:
Wing-Kin Sung. Algorithms in Bioinformatics: A Practical Introduction. Chapman & Hall/CRC Mathematical & Computational Biology. 2009.
Arthur Lesk. Introduction to Bioinformatics. Oxford University Press, 2014.
Pierre Baldi;G. Wesley Hatfield. DNA Microarrays and Gene Expression: From Experiments to Data Analysis and Modeling. Cambridge University Press 2002.
Recommended literature:
Caroline St. Clair, Jonathan E. Visick. Exploring Bioinformatics: A Project-Based Approach. Jones & Bartlett Learning, 2013.
Way of continuous check of knowledge in the course of semester
E-learning
Other requirements
Additional requirements are not placed on the student.
Prerequisities
Subject has no prerequisities.
Co-requisities
Subject has no co-requisities.
Subject syllabus:
Introduction to Molecular Biology
Sequence Similarity
Suffix Tree
Database search
Alignment
Algorithm Needleman-Wunsch
Phylogeny Reconstruction
Phylogeny Comparison
RNA secondary structure prediction
DNA Sequencing
Population genetics
Conditions for subject completion
Occurrence in study plans
Occurrence in special blocks
Assessment of instruction