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Bioinformatics is an interdisciplinary field focused on storing, organising, analysing, and interpreting biological data sets.<br>
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In the course, students will learn about the possibilities of utilizing available bioinformatics databases and software. Practically, they will gain experience in searching for information and sequence data and explore their potential applications. This course is primarily based on hands-on computer work, allowing students to independently test various web applications.<br>
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Topics covered include: literature searches, protein and nucleotide sequence databases, sequence comparison and analysis of their properties, identification of similar sequences, restriction analysis, primer design, specialized databases, and more.
Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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To obtain course credit, students must meet the attendance requirement (at least 80%) and complete and submit all short exercises (homework) covered in the seminars (submission via Moodle).
The exam is conducted in written form on computers by completing a given set of tasks (with the possibility of using all available materials). Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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Doporučená:
Selzer,Paul. Applied bioinformatics-an introduction. Springer, 2018. Cvrčková, Fatima. Úvod do praktické bioinformatiky. Praha: Academia, 2006, 148 s. ISBN 80-200-1360-1. Claverie, Jean-Michel Notredame, Cedric. Bioinformatics for dummies. Indianopolis: John Wiley, 2003, 452 s. ISBN 0-7645-1696-5. Volitelná:
Zvelebil, Marketa J. Baum, Jeremy O.. Understanding bioinformatics. New York: Garland Science, Group, 2008, 772 s. ISBN 978-0-8153-4024-9. Hu, Xiaohua, Pan, Yi, (eds.). Knowledge discovery in bioinformatics techniques, methods, and applications. Hoboken, N.J.: Wiley-Interscience, 2007, 363 s. ISBN 978-0-470-12464-2. Dziuda, Darius M.. Data mining for genomics and proteomics : analysis of gene and protein expression data. Hoboken: Wiley, 2010, 319 s. ISBN 978-0-470-16373-3. Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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Výuka probíhá v počítačové učebně; každý seminář je zahájen krátkou přednáškou uvádějící do konkrétní problematiky, následovanou praktickými ukázkami a procvičováním. Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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Zvládnutí praktických úkolů (na počítači) dle zadání (s možností využití všech dostupných materiálů). Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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1. Literature Search Options UKAŽ, PubMed, Web of Science, Scopus Citation management software (Web EndNote, EndNote, Mendeley) Impact factor, H-index, predatory journals 2–4. Proteins Protein databases and sequence search Sequence formats and sequence manipulation Sequence properties, domain prediction, and transmembrane region prediction Sequence comparison: pairwise and multiple alignment, similarity search (BLAST), phylogenetic tree construction 5–9. Nucleic Acids DNA sequence databases Nucleotide sequence analysis: polymorphism detection, restriction analysis, in silico cloning Primer design for various applications (qPCR, mutagenesis) Gene search and identification, analysis of "unknown" sequences, open reading frame (ORF) identification 10. Specialized Databases Expression Atlas, Enzyme, and others Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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Moodle kurz: https://dl1.cuni.cz/course/view.php?id=5146 Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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Last update: Navrátilová Lucie, Ing. (21.02.2025)
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Zkouška z molekulární biologie Last update: Matoušková Petra, doc. Ing., Ph.D. (25.03.2025)
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