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Last update: RNDr. Martin Pospíšek, Ph.D. (04.01.2019)
The course will be complemented with practical tutorials mainly focused on genomics and proteomics data analysis. |
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Last update: RNDr. Martin Pospíšek, Ph.D. (04.04.2012)
Lectures reflect development in technologies and our current knowledge and change every year. Therefore teachers will prepare a new batch of recommended literature for each course. The recommended literature will be available for students enrolled to the course on http://web.natur.cuni.cz/~pospisek/vyuka/vyuka.htm in advance. |
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Last update: RNDr. Martin Pospíšek, Ph.D. (04.04.2012)
Final exam will be performed preferentially as a computer test but might comprise an oral exam or combination of both. The exam scope is bounded by the syllabus and information provided during the course. |
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Last update: RNDr. Martin Pospíšek, Ph.D. (01.04.2012)
2011 lecturer team will comprise (without titles): Vladimir Benes [benes@embl.de] - genomics http://www.embl.de/services/core_facilities/genecore/members/index.php?s_personId=147 Jeroen Krijgveld [jeroen.krijgsveld@embl.de] - proteomics http://www.embl.de/research/units/genome_biology/krijgsveld/index.html Jonathon Blake [blake@embl.de] - bioinformatics http://www.embl.de/services/core_facilities/genecore/index.html Andy Riddell [riddell@embl.de] - flow cytometry http://fccfweb.embl-heidelberg.de/fccfweb/index.php?option=com_contact&task=view&contact_id=1&Itemid=93 Beate Neumann [bneumann@embl.de] - systematic siRNA approaches http://www.embl.de/almf/almf_services/contact/neumann/ Tobias Rausch [rausch@embl.de] - bioinformatics http://www.embl.de/~rausch/ Hüseyin Besir [besir@embl.de] - protein expression and purification http://www.embl.de/services/core_facilities/pepcore/members/index.php?s_personId=CP-60003254
The covered topics will include: Genomics: Microarrays - overview of technologies & applications; Massively parallel sequencing - overview of technologies & applications; comparison with microarrays qPCR - principles, applications, data Proteomics: Mass spectrometry: what?s the purpose? MS instrumentation Peptide fingerprinting: protein identification by MS Peptide sequencing by MS Identification of post-translational modifications LC-MSMS and large-scale proteomics, incl. examples Stable-isotope labeling and quantitative proteomics Analysis of intact proteins Bioinformatics: Introduction: Biologists and Bioinformatics >What bioinformatics is >What bioinformatics can do >What it can?t do >Current Challenges for bioinformatics >Data sizes, Read lengths Application 1: Microarrays >Analysis >Normalization >Design >Data Repositories and Mining Application 2: Next Generation Sequencing >The range of applications >Data analysis by application >What can go wrong and biases with counts Flow cytometry: The principles of flow cytometry Technology overview Assays, applications siRNA The principles of siRNAs Technology overview Applications, examples, including high-throughput screenings Protein expression and purification Introduction to various protein expression systems and technologies Applications, examples, troubleshooting |