Uwe Sauer: Catalogue data in Spring Semester 2015 |
Name | Prof. Dr. Uwe Sauer |
Field | Systembiologie |
Address | Inst. f. Molekulare Systembiologie ETH Zürich, HPM H 28 Otto-Stern-Weg 3 8093 Zürich SWITZERLAND |
Telephone | +41 44 633 36 72 |
sauer@imsb.biol.ethz.ch | |
Department | Biology |
Relationship | Full Professor |
Number | Title | ECTS | Hours | Lecturers | |
---|---|---|---|---|---|
551-0001-AAL | General Biology I Enrolment only for MSc students who need this course as additional requirement. | 3 credits | 6R | U. Sauer, A. Widmer | |
Abstract | Basics of structure, formation and function of cells and biomacromolecules, principles of metabolism, as well as basic classical and molecular genetics and evolutionary biology. This is a virtual self-study lecture for non-german speakers of the "Allgemeine Biology I (551-0001-00L) lecture. The exam will be written jointly with the participants of this lecture. | ||||
Learning objective | The understanding of some basic principles of biology: the hierarchy of the structural levels of biological organisation, with particular emphasis on the cell and its functions, as well as metabolism, inheritance and evolution. | ||||
Content | The structure and function of biomacromolecules; basics of metabolism; cell biology; membrane structure and function; basic energetics of cellular processes; respiration, photosynthesis; cell cycle, meiosis and sexual life cycles; Mendelian and molecular genetics; animal reproduction and behavior; sensory and motor mechanisms; population biology and evolution; principles of phylogeny. We will treat the following Campbell chapters: 2 The Chemical Context of Life 3 Water and the Fitness of the Environment 4 Carbon and the Molecular Diversity of Life 5 The Structure and Function of Large Biological Molecules 6 A Tour of the Cell 7 Membrane Structure and Function 8 An Introduction to Metabolism 9 Cellular Respiration 10 Photosynthesis 13 Meiosis and Sexual Life Cycles 14 Mendel and the Gene Idea 15 The Chromosomal Basis of Inheritance 21 Genomes and their Evolution 22 Descent with Modification 23 The Evolution of Populations 24 The Origin of Species 25 The History of Life on Earth 26 Phylogeny and the Tree of Life | ||||
Lecture notes | No script | ||||
Literature | N. A. Campbell, J. B. Reece: "Biologie" (8. aktualisierte Aufl.); Pearson Studium, München 2009. (deutsche Auflage) oder: J. B. Reece, L. A. Urry, M. L. Cain, S. A. Wasserman, P. V. Minorsky, R. B. Jackson: "Campbell Biology" (9th edition); Benjamin Cummings, San Francisco 2010. (English edition) oder: N. A. Campbell, J. B. Reece: "Biology" (8th edition); Benjamin Cummings, San Francisco 2008. | ||||
Prerequisites / Notice | This is a virtual self-study lecture for non-german speakers of the "Allgemeine Biology I (551-0001-00L) lecture. The exam will be written jointly with the participants of this lecture. Example exam questions will be discussed during the lectures, and old exam questions are kept by the various student organisations. If necessary, please contact Prof. Uwe Sauer (sauer@ethz.ch) for details regarding the exam. | ||||
551-0002-AAL | General Biology II Enrolment only for MSc students who need this course as additional requirement. | 3 credits | 6R | U. Sauer, R. Aebersold, H.‑M. Fischer, W. Gruissem | |
Abstract | Basics of structure, formation and function of cells and biomacromolecules, principles of metabolism, basic molecular genetics, form and function of plants. | ||||
Learning objective | The understanding of some basic concepts of biology: the hierarchy of the structural levels of biological organisation, with particular emphasis on the cell and its functions, the fundamentals of metabolism and molecular genetics, as well as form and function of vascular plants. | ||||
Content | The structure and function of biomacromolecules; basics of metabolism; tour of the cell; membrane structure and function; basic energetics of cellular processes; respiration, photosynthesis; cell cycle, from gene to protein; bacteria and archaea; structure and growth of vascular plants, resource acquisition and transport, soil and plant nutrition. The content of this lecture is identical to the "Allgemeine Biologie II" with the following Campbell chapters: 16 The Molecular Basis of Inheritance 17 From Gene to Protein 18 Regulation of Gene Expression 19 Viruses 20, 38 Biotechnology, Biosafety 27 Bacteria and Archae 28 Protists 31 Fungi 29, 30 Plant Diversity I & II 35 Plant Structure, Growth, and Development 36 Resource Acquisition and Transport 37 Soil and Plant Nutrition 38 Angiosperm Reproduction and Biotechnology 39 Plant Responses to Internal and External Signals | ||||
Lecture notes | No script | ||||
Literature | N. A. Campbell, J. B. Reece: "Biology" (8th edition); Benjamin Cummings, San Francisco 2008. | ||||
Prerequisites / Notice | Basic general and organic chemistry | ||||
551-0002-00L | General Biology II | 3 credits | 3G | U. Sauer, R. Aebersold, H.‑M. Fischer, W. Gruissem | |
Abstract | Basics of molecular biology (gene expression and its regulation; from gene to protein); evolution of biological diversity (bacteria, archaea, protists, fungi, plants); basics of the physiology of higher plants (structure, growth, development, nutrition, transport, reproduction) | ||||
Learning objective | The understanding of basic concepts in biology: gene expression, its control and regulation; life histories of pro- and eucaryotic microorgamisms; structure, function, and reprodction of higher plants. | ||||
Content | From gene to protein; molecular genetics of microbial systems; structural and metabolic diversity of prokaryotes; diversity of eukaryotic microorganisms; the eukaryotic genome; regulation of gene expression; the genetic basis of the development of multicellullar organisms. Plant physiology: structure and growth, physiology of photosynthesis incl. C4 and CAM, nutrition and transport processes, reproduction and development, response to internal and external signals. The following Campbell chapters will be covered: 16 The Molecular Basis of Inheritance 17 From Gene to Protein 18 Regulation of Gene Expression 19 Viruses 20, 38 Biotechnology, Biosafety 27 Bacteria and Archae 28 Protists 31 Fungi 29, 30 Plant Diversity I & II 35 Plant Structure, Growth, and Development 36 Resource Acquisition and Transport 37 Soil and Plant Nutrition 38 Angiosperm Reproduction and Biotechnology 39 Plant Responses to Internal and External Signals | ||||
Lecture notes | no script | ||||
Literature | N. A. Campbell, J. B. Reece: "Biology" (8th edition); Pearson, San Francisco 2008. | ||||
Prerequisites / Notice | The lecture is the second in a series of two lectures given over two semesters for students of agricultural and food sciences, as well as of environmental sciences. | ||||
551-0324-00L | Systems Biology ![]() | 6 credits | 4V | R. Aebersold, B. Christen, M. Claassen, E. Hafen, U. Sauer | |
Abstract | Introduction to experimental and computational methods of systems biology. By using baker’s yeast as a thread through the series, we focus on global methods for analysis of and interference with biological functions. Illustrative applications to other organisms will highlight medical and biotechnological aspects. | ||||
Learning objective | - obtain an overview of global analytical methods - obtain an overview of computational methods in systems biology - understand the concepts of systems biology | ||||
Content | Overview of global analytical methods (e.g. DNA arrays, proteomics, metabolomics, fluxes etc), global interference methods (siRNA, mutant libraries, synthetic lethality etc.) and imaging methods. Introduction to mass spectrometry and proteomics. Concepts of metabolism in microbes and higher cells. Systems biology of developmental processes. Concepts of mathematical modeling and applications of computational systems biology. | ||||
Lecture notes | no script | ||||
Literature | The course is not taught by a particular book, but some books are suggested for further reading: - Systems biology in Practice by Klipp, Herwig, Kowald, Wierling und Lehrach. Wiley-VCH 2005 | ||||
551-0342-00L | Metabolomics ![]() ![]() Number of participants limited to 10 | 6 credits | 7G | N. Zamboni, U. Sauer | |
Abstract | The course covers all basic aspects of metabolome measurements, from sample sampling to mass spectrometry and data analysis. Participants work in groups and independently perform and interpret metabolomic experiments. | ||||
Learning objective | Performing and reporting a metabolomic experiment, understanding pro and cons of mass spectrometry based metabolomics. Knowledge of workflows and tools to assist experiment interpretation, and metabolite identification. | ||||
Content | Basics of metabolomics: workflows, sample preparation, targeted and untargeted mass spectrometry, instrumentation, separation techniques (GC, LC, CE), metabolite identification, data interpretation and integration, normalization, QCs, maintenance. Soft skills to be trained: project planning, presentation, reporting, independent working style, team work. | ||||
551-1174-00L | Systems Biology | 4 credits | 2V + 2U | U. Sauer, K. M. Borgwardt, J. Stelling, N. Zamboni | |
Abstract | The course teaches computational methods and first hands-on applications by starting from biological problems/phenomena that students in the 4th semester are somewhat familiar with. During the exercises, students learn to program their own analyses/models for data analysis/interpretation. | ||||
Learning objective | - understand the limitations of intuitive reasoning - obtain a first overview of computational approaches in systems biology - train ability to translate biological problems into computational problems - solve practical problems by programming with MATLAB - make first experiences in computational interpretation of biological data - understand typical abstractions in modeling molecular systems | ||||
Content | During the first 7 weeks, the will focus on mechanistic modeling. Starting from simple enzyme kinetics, we will move through the dynamics of small pathways that also include regulation and end with flux balance analysis of a medium size metabolic network. During the second 7 weeks, the focus will shift to the analysis of larger data sets, such as metabolomics and transcriptomics that are often generated in biology. Here we will go through multivariate statistical methods that include clustering and principal component analysis, ending with first methods to learn networks from data. | ||||
Lecture notes | No script | ||||
Literature | The course is not taught by a particular book, but two books are suggested for further reading: - Systems Biology (Klipp, Herwig, Kowald, Wierling und Lehrach) Wiley-VCH 2009 - A First Course in Systems Biology (Eberhardt O. Voight) Garland Science 2012 |