Courses list

Wersja polska

Course code: BIS10026o14
Semester: 2014/2015 summer
Name: Introduction to Bioinformatics
Major: Bioinformatics
Study Type: first cycle
Course type: compulsory
Study Semester: 4
ECTS points: 5
Hours (Lectures / Tutorials / Other): 15 / 30 / 0
Lecturer: dr hab. Paweł Mackiewicz
Language of instruction: Polish
The course exclusively in Polish, with a possibility of support in English

Learning outcomes: Knowledge: - student knows theoretical and practical principles of different bioinformatics studies on all levels of organization of biological information such as: recognition of coding sequences and other analyses of nucleotide sequences, genome analyses, sequence alignment, searching databases for homologous sequences, analyses of amino acid sequences, phylogenetic analyses; he knows basic databases related to bioinformatics and genomics [BI_W07; BI_W09; BI_W10; BI_W11; BI_W12; BI_W13; BI_W14; BI_W15; BI_W17]. Skills: - student is able to search appropriate databases and apply suitable bioinformatics software to specific problems and tasks related to analyses of biological data on the nucleotide and amino acid as well as genomic levels; he can performed basic phylogenetic analyses [BI_U01; BI_U04; BI_U05; BI_U06; BI_U07; BI_U09; BI_U11; BI_U13]. Personal and social competences (attitudes and behaviors): - after completing the course, student prepared to take jobs in laboratories dealing with processing of biological data by computational methods (e.g. molecular and bioinformatics laboratories and companies, research and service units) and is aware of the need for continuous update of his knowledge in the quickly developing field of bioinformatics [BI_K01; BI_K05; BI_K06; BI_K08].

Competences: After completing the course student is able to search appropriate databases and apply suitable bioinformatics software to specific problems and tasks related to analyses of biological data. Passing the course permits working in laboratories dealing with processing of biological data by computational methods (e.g. molecular and bioinformatics laboratories and companies, research and service units).

Prerequisites: biochemistry, cell biology, computer programs, genetics, informatics technology

Course content: Subject and levels of genomics and bioinformatics analyses. Stages of genome sequencing. Types of biological databases. Problems in the databases. Computational methods in recognition of protein coding sequences in Prokaryota and Eukaryota. Structure and organization of genomes, genome analyses, comparative genomics. Computational analyses of RNA sequences. Alignment of pair of sequences and multiple sequence alignment. Searching databases for similar sequences (FASTA and BLAST algorithms). Motifs and patterns in sequences. Computational analyses of protein sequences, analysis of basic physicochemical properties, recognition of transmemmbrane regions, motifs and domains in proteins, determination of secondary structure. Databases of structures, methods predicting tertiary structure, structural classification of proteins. Phylogenetics and molecular evolution, construction and evaluation of phylogenetic trees, phylogenomics. System biology.

Recommended literature: 1. A.D. Baxevanis, B.F.F. Ouellette (red.), Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins. Wiley-Liss, Inc. 2005 (lub wersja tłumaczona na język polski Bioinformatyka podręcznik do analizy genów i białek wydana przez PWN, 2004) 2. J.-M. Claverie, C. Notredame, Bioinformatics For Dummies. Wiley Publishing, Inc. 2006. 3. P.G. Higgs, T.K. Attwood, Bioinformatyka i ewolucja molekularna, PWN, 2008 4. B. Hall, Łatwe drzewa filogenetyczne. WUW, 2008 5. X. Jin, Podstawy bioinformatyki, WUW, 2011

Assessment methods: Completion of practical lessons: practical colloquium using computer Examination in the form of open test

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