Search result: Catalogue data in Autumn Semester 2020
Health Sciences and Technology Master ![]() | ||||||
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Number | Title | Type | ECTS | Hours | Lecturers | |
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327-2125-00L | Microscopy Training SEM I - Introduction to SEM ![]() The number of participants is limited. In case of overbooking, the course will be repeated once. All registrations will be recorded on the waiting list. For PhD students, postdocs and others, a fee will be charged (http://www.scopem.ethz.ch/education/MTP.html). All applicants must additionally register on this form: Link The selected applicants will be contacted and asked for confirmation a few weeks before the course date. | W | 2 credits | 3P | P. Zeng, A. G. Bittermann, S. Gerstl, L. Grafulha Morales, K. Kunze, J. Reuteler | |
Abstract | This introductory course on Scanning Electron Microscopy (SEM) emphasizes hands-on learning. Using ScopeM SEMs, students have the opportunity to study their own samples (or samples provided) and solve practical problems by applying knowledge acquired during the lectures. At the end of the course, students will be able to apply SEM for their (future) research projects. | |||||
Learning objective | - Set-up, align and operate a SEM successfully and safely. - Understand important operational parameters of SEM and optimize microscope performance. - Explain different signals in SEM and obtain secondary electron (SE) and backscatter electron (BSE) images. - Operate the SEM in low-vacuum mode. - Make use of EDX for semi-quantitative elemental analysis. - Prepare samples with different techniques and equipment for imaging and analysis by SEM. | |||||
Content | During the course, students learn through lectures, demonstrations, and hands-on sessions how to setup and operate SEM instruments, including low-vacuum and low-voltage applications. This course gives basic skills for students new to SEM. At the end of the course, students are able to align an SEM, to obtain secondary electron (SE) and backscatter electron (BSE) images and to perform energy dispersive X-ray spectroscopy (EDX) semi-quantitative analysis. Emphasis is put on procedures to optimize SEM parameters in order to best solve practical problems and deal with a wide range of materials. Lectures: - Introduction on Electron Microscopy and instrumentation - electron sources, electron lenses and probe formation - beam/specimen interaction, image formation, image contrast and imaging modes. - sample preparation techniques for EM - X-ray micro-analysis (theory and detection), qualitative and semi-quantitative EDX and point analysis, linescan and spectral mapping Practicals: - Brief description and demonstration of the SEM microscope - Practice on image formation, image contrast (and image processing) - Student participation on sample preparation techniques - Scanning Electron Microscopy lab exercises: setup and operate the instrument under various imaging modalities - Practice on real-world samples and report results | |||||
Lecture notes | Lecture notes will be distributed. | |||||
Literature | - Peter Goodhew, John Humphreys, Richard Beanland: Electron Microscopy and Analysis, 3rd ed., CRC Press, 2000 - Joseph Goldstein, et al, Scanning Electron Microscopy and X-Ray Microanalysis, 4th ed, Srpinger US, 2018 - Egerton: Physical Principles of Electron Microscopy: an introduction to TEM, SEM and AEM, Springer Verlag, 2007 | |||||
Prerequisites / Notice | No mandatory prerequisites. | |||||
327-2126-00L | Microscopy Training TEM I - Introduction to TEM ![]() The number of participants is limited. In case of overbooking, the course will be repeated once. All registrations will be recorded on the waiting list. For PhD students, postdocs and others, a fee will be charged (http://www.scopem.ethz.ch/education/MTP.html). All applicants must additionally register on this form: Link The selected applicants will be contacted and asked for confirmation a few weeks before the course date. | W | 2 credits | 3P | P. Zeng, E. J. Barthazy Meier, A. G. Bittermann, F. Gramm, A. Sologubenko, M. Willinger | |
Abstract | The introductory course on Transmission Electron Microscopy (TEM) provides theoretical and hands-on learning for beginners who are interested in using TEM for their Master or PhD thesis. TEM sample preparation techniques are also discussed. During hands-on sessions at different TEM instruments, students will have the opportunity to examine their own samples if time allows. | |||||
Learning objective | Understanding of 1. the set-up and individual components of a TEM 2. the basics of electron optics and image formation 3. the basics of electron beam – sample interactions 4. the contrast mechanism 5. various sample preparation techniques Learning how to 1. align and operate a TEM 2. acquire data using different operation modes of a TEM instrument, i.e. Bright-field and Dark-field imaging 3. record electron diffraction patterns and index diffraction patterns 4. interpret TEM data | |||||
Content | Lectures: - basics of electron optics and the TEM instrument set-up - TEM imaging modes and image contrast - STEM operation mode - Sample preparation techniques for hard and soft materials Practicals: - Demo, practical demonstration of a TEM: instrument components, alignment, etc. - Hands-on training for students: sample loading, instrument alignment and data acquisition. - Sample preparation for different types of materials - Practical work with TEMs - Demonstration of advanced Transmission Electron Microscopy techniques | |||||
Lecture notes | Lecture notes will be distributed. | |||||
Literature | - Williams, Carter: Transmission Electron Microscopy, Plenum Press, 1996 - Hawkes, Valdre: Biophysical Electron Microscopy, Academic Press, 1990 - Egerton: Physical Principles of Electron Microscopy: an introduction to TEM, SEM and AEM, Springer Verlag, 2007 | |||||
Prerequisites / Notice | No mandatory prerequisites. Please consider the prior attendance to EM Basic lectures (551-1618-00V; 227-0390-00L; 327-0703-00L) as suggested prerequisite. | |||||
376-0121-00L | Multiscale Bone Biomechanics ![]() Number of participants limited to 30 | W | 6 credits | 4S | R. Müller, X.‑H. Qin | |
Abstract | The seminar provides state-of-the-art insight to the biomechanical function of bone from molecules, to cells, tissue and up to the organ. Multiscale imaging and simulation allows linking different levels of hierarchy, where systems biology helps understanding the mechanobiological response of bone to loading and injury in scenarios relevant for personalized health and translational medicine. | |||||
Learning objective | The learning objectives include 1. advanced knowledge of the state-of-the-are in multiscale bone biomechanics; 2. basic understanding of the biological principles governing bone in health, disease and treatment from molecules, to cells, tissue and up to the organ; 3. good understanding of the prevalent biomechanical testing and imaging techniques on the various levels of bone hierarchy; 4. practical implementation of state-of-the-art multiscale simulation techniques; 5. improved programing skills through the use of python; 6. hands on experience in designing solutions for clinical and industrial problems; 7. encouragement of critical thinking and creating an environment for independent and self-directed studying. | |||||
Content | Bone is one of the most investigated biological materials due to its primary function of providing skeletal stability. Bone is susceptible to different local stimuli including mechanical forces and has great capabilities in adapting its mechanical properties to the changes in its environment. Nevertheless, aging or hormonal changes can make bone lose its ability to remodel appropriately, with loss of strength and increased fracture risk as a result, leading to devastating diseases such as osteoporosis. To better understand the biomechanical function of bone, one has to understand the hierarchical organization of this fascinating material down from the molecules, to the cells, tissue and up to the organ. Multiscale imaging and simulation allows to link these different levels of hierarchy. Incorporating systems biology approaches, not only biomechanical strength of the material can be assessed but also the mechanobiological response of the bone triggered by loading and injury in scenarios relevant for personalized health and translational medicine. Watching cells working together to build and repair bone in a coordinated fashion is a spectacle, which will need dynamic image content and deep discussions in the lecture room to probe the imagination of the individual student interested in the topic. For the seminar, concepts of video lectures will be used in a flipped class room setup, where students can study the basic biology, engineering and mathematical concepts in video tutorials online (TORQUES). All videos and animations will be incorporated in Moodle and PolyBook allowing studying and interactive course participation online. It is anticipated that the students need to prepare 2x45 minutes for the study of the actual lecture material. On the Friday afternoon, the first time slot (12-13) will be used for students, who want to schedule one-to-one meetings with the lecturer/tutors to discuss course content. In the later time slots (13-16), short clips with video/animation content will be used to introduce problems and discuss specific scientific findings using multiscale imaging and simulation technology in a flipped classroom. The students will have to form small groups to try to solve such problems and to present their solutions for advanced multiscale investigation of bone ranging from basic science to personalized health and onto translational medicine. Towards the end of the semester, students will have to present self-selected publications associated with the different topics of the lecture identified through PubMed or the Web of Science. | |||||
Lecture notes | Material will be provided in Moodle and PolyBook. | |||||
Prerequisites / Notice | Prior experience with the programming language python is beneficial but not mandatory. ETH offers courses for practical programming with python. | |||||
376-0303-00L | Colloquium in Translational Science (Autumn Semester) | W | 1 credit | 1K | M. Ristow, A. Alimonti, N. Cesarovic, C. Ewald, V. Falk, J. Goldhahn, K. Maniura, J. Mitchell, R. M. Rossi, S. Schürle-Finke, G. Shivashankar, E. Vayena, V. Vogel | |
Abstract | Current topics in translational medicine presented by speakers from academia and industry. | |||||
Learning objective | Getting insight into actual areas and problems of translational medicine. | |||||
Content | Timely and concise presentations of postgraduate students, post-docs, senior scientists, professors, as well as external guests from both academics and industry will present topics of their interest related to translational medicine. | |||||
Prerequisites / Notice | No compulsory prerequisites, but student should have basic knowledge about biomedical research. | |||||
376-1151-00L | Translation of Basic Research Findings from Genetics and Molecular Mechanisms of Aging ![]() Does not take place this semester. Number of participants limited to 30. | W | 3 credits | 2V | C. Ewald | |
Abstract | Recently, several start-up companies are aiming to translate basic molecular findings into new drugs/therapeutic interventions to slow aging or post-pone age-related diseases (e.g., Google founded Calico or Craig Venter's Human Longevity, Inc.). This course will teach students the basic skill sets to formulate their own ideas, design experiments to test them and explains the next steps to translat | |||||
Learning objective | The overall goal of this course is to be able to analyse current therapeutic interventions to identify an unmet need in molecular biology of aging and apply scientific thinking to discover new mechanisms that could be used as a novel therapeutic intervention. Learning objectives include: 1. Evaluate the current problem of our aging population, the impact of age-dependent diseases and current strategies to prevent these age-dependent diseases. 2. Analyse/compare current molecular/genetic strategies that address these aging problems. 3. Analyse case studies about biotech companies in the aging sector. Apply the scientific methods to formulate basic research questions to address these problems. 4. Generate own hypotheses (educated guess/idea), design experiments to test them, and map out the next steps to translate them. | |||||
Content | Overview of aging and age-related diseases. Key discoveries in molecular biology of aging. Case studies of biotech companies addressing age-related complications. Brief introduction from bench to bedside with focus on start-up companies. | |||||
Prerequisites / Notice | No compulsory prerequisites, but student should have basic knowledge about genetics and molecular biology. | |||||
376-1353-00L | Nanostructured Materials Safety | W | 2 credits | 1V | P. Wick | |
Abstract | Fundamentals in nanostructured material - living system interactions focusing on the main exposure routes, lung, gastrointestinal tract, skin and intravenous injection | |||||
Learning objective | Understanding the potential side effects of nanomaterials in a context-specific way, enabling to evaluate nanomaterial safety and provide knowledge to design safer materials | |||||
Lecture notes | Handouts provided during the classes and references therein as well as primary literature as case studies will be posted to the course website | |||||
Prerequisites / Notice | course "Introduction to Toxicology" | |||||
376-1622-00L | Practical Methods in Tissue Engineering ![]() Number of participants limited to 12. | W | 5 credits | 4P | M. Zenobi-Wong, S. J. Ferguson, S. Grad, S. Schürle-Finke | |
Abstract | The goal of this course is to teach MSc students the necessary skills for doing research in the fields of tissue engineering and regenerative medicine. | |||||
Learning objective | Practical exercises on topics including sterile cell culture, light microscopy and histology, and biomaterials are covered. Practical work on manufacturing and evaluating hydrogels and scaffolds for tissue engineering will be performed in small groups. In addition to practical lab work, the course will teach skills in data acquisition/analysis. | |||||
Prerequisites / Notice | A Windows laptop (or Windows on Mac) is required for certain of the lab modules. | |||||
551-0223-00L | Immunology III | W | 4 credits | 2V | M. Kopf, S. B. Freigang, J. Kisielow, S. R. Leibundgut, A. Oxenius, C. Schneider, E. Slack, R. Spörri, L. Tortola | |
Abstract | This course provides a detailed understanding of - development of T and B cells - the dynamics of a immune response during acute and chronic infection - mechanisms of immunopathology - modern vaccination strategies Key experimental results will be shown to help understanding how immunological text book knowledge has evolved. | |||||
Learning objective | Obtain a detailed understanding of - the development, activation, and differentiation of different types of T cells and their effectormechanisms during immune responses, - Recognition of pathogenic microorganisms by the host cells and molecular events thereafter, - events and signals for maturation of naive B cells to antibody producing plasma cells and memory B cells. - Optimization of B cell responses by intelligent design of new vaccines | |||||
Content | o Development and selection of CD4 and CD8 T cells, natural killer T cells (NKT), and regulatory T cells (Treg) o NK T cells and responses to lipid antigens o Differentiation, characterization, and function of CD4 T cell subsets such as Th1, Th2, and Th17 o Overview of cytokines and their effector function o Co-stimulation (signals 1-3) o Dendritic cells o Evolution of the "Danger" concept o Cells expressing Pattern Recognition Receptors and their downstream signals o T cell function and dysfunction in acute and chronic viral infections | |||||
Literature | Documents of the lectures are available for download at: https://moodle-app2.let.ethz.ch/course/view.php?id=2581¬ifyeditingon=1 | |||||
Prerequisites / Notice | Immunology I and II recommended but not compulsory | |||||
551-0309-00L | Concepts in Modern Genetics Information for UZH students: Enrolment to this course unit only possible at ETH. No enrolment to module BIO348 at UZH. Please mind the ETH enrolment deadlines for UZH students: Link | W | 6 credits | 4V | Y. Barral, D. Bopp, A. Hajnal, O. Voinnet | |
Abstract | Concepts of modern genetics and genomics, including principles of classical genetics; yeast genetics; gene mapping; forward and reverse genetics; structure and function of eukaryotic chromosomes; molecular mechanisms and regulation of transcription, replication, DNA-repair and recombination; analysis of developmental processes; epigenetics and RNA interference. | |||||
Learning objective | This course focuses on the concepts of classical and modern genetics and genomics. | |||||
Content | The topics include principles of classical genetics; yeast genetics; gene mapping; forward and reverse genetics; structure and function of eukaryotic chromosomes; molecular mechanisms and regulation of transcription, replication, DNA-repair and recombination; analysis of developmental processes; epigenetics and RNA interference. | |||||
Lecture notes | Scripts and additional material will be provided during the semester. | |||||
551-0317-00L | Immunology I | W | 3 credits | 2V | M. Kopf, A. Oxenius | |
Abstract | Introduction into structural and functional aspects of the immune system. Basic knowledge of the mechanisms and the regulation of an immune response. | |||||
Learning objective | Introduction into structural and functional aspects of the immune system. Basic knowledge of the mechanisms and the regulation of an immune response. | |||||
Content | - Introduction and historical background - Innate and adaptive immunity, Cells and organs of the immune system - B cells and antibodies - Generation of diversity - Antigen presentation and Major Histoincompatibility (MHC) antigens - Thymus and T cell selection - Autoimmunity - Cytotoxic T cells and NK cells - Th1 and Th2 cells, regulatory T cells - Allergies - Hypersensitivities - Vaccines, immune-therapeutic interventions | |||||
Lecture notes | Electronic access to the documentation will be provided. The link can be found at "Lernmaterialien" | |||||
Literature | - Kuby, Immunology, 7th edition, Freemen + Co., New York, 2009 | |||||
Prerequisites / Notice | Immunology I (WS) and Immunology II (SS) will be examined as one learning entity in a "Sessionsprüfung". | |||||
551-0512-00L | Current Topics in Molecular and Cellular Neurobiology ![]() Does not take place this semester. Number of participants limited to 8. | W | 2 credits | 1S | U. Suter | |
Abstract | The course is a literature seminar or "journal club". Each Friday a student, or a member of the Suter Lab in the Institute of Molecular Health Sciences, will present a paper from the recent literature. | |||||
Learning objective | The course introduces you to recent developments in the fields of cellular and molecular neurobiology. It also supports you to develop your skills in critically reading the scientific literature. You should be able to grasp what the authors wanted to learn i.e. their goals, why the authors chose the experimental approach they used, the strengths and weaknesses of the experiments and the data presented, and how the work fits into the wider literature in the field. You will present one paper yourself, which provides you with practice in public speaking. | |||||
Content | You will present one paper yourself. Give an introduction to the field of the paper, then show and comment on the main results (all the papers we present are available online, so you can show original figures with a beamer). Finish with a summary of the main points and a discussion of their significance. You are expected to take part in the discussion and to ask questions. To prepare for this you should read all the papers beforehand (they will be announced a week in advance of the presentation). | |||||
Lecture notes | Presentations will be made available after the seminars. | |||||
Prerequisites / Notice | You must attend at least 80% of the journal clubs, and give a presentation of your own. At the end of the semester there will be a 30 minute oral exam on the material presented during the semester. The grade will be based on the exam (45%), your presentation (45%), and a contribution based on your active participation in discussion of other presentations (10%). | |||||
551-0571-00L | From DNA to Diversity (University of Zurich) No enrolment to this course at ETH Zurich. Book the corresponding module directly at UZH. UZH Module Code: BIO336 Mind the enrolment deadlines at UZH: https://www.uzh.ch/cmsssl/en/studies/application/chmobilityin.html l | W | 2 credits | 2V | A. Hajnal, D. Bopp | |
Abstract | The evolution of the various body-plans is investigated by means of comparison of developmentally essential control genes of molecularly analysed model organisms. | |||||
Learning objective | By the end of this module, each student should be able to - recognize the universal principles underlying the development of different animal body plans. - explain how the genes encoding the molecular toolkit have evolved to create animal diversity. - relate changes in gene structure or function to evolutionary changes in animal development. Key skills: By the end of this module, each student should be able to - present and discuss a relevant evolutionary topic in an oral presentation - select and integrate key concepts in animal evolution from primary literature - participate in discussions on topics presented by others | |||||
551-1003-00L | Methods of Biological Analysis ![]() | W | 3 credits | 3G | M. Badertscher, P. Picotti, K. Weis | |
Abstract | 529-1042-00 Principles of the most important separation techniques and the interpretation of molecular spectra. 551-1003-00 The course will teach the basis and typical applications of methods for the analysis of nucleic acid sequences, mass spectrometric analysis of proteins and proteomes and advanced light and fluorescent imaging methods. | |||||
Learning objective | 529-1042-00 Knowledge of the necessary basics and the possibilities of application of the relevant spectroscopical and separation methods in analytical chermistry. 551-1003-00 Knowledge of the theoretical basis of the methods for nucleic acid sequence analysis, mass spectrometry based protein and proteome analysis and advanced light and fluorescent imaging methods, and an understanding of the application of these principles in experimental biology. | |||||
Content | 529-1042-00 Application oriented basics of instrumental analysis in organic chemistry and the empirical employment of the methods of structure elucidation (mass spectrometry, NMR-, IR-, UV/VIS spectroscopy). Basics and application of chromatographic and electrophoretic separation methods. Application of the knowledge by practising. 551-1003-00 The course will consist of lectures covering the theoretical and technical base of the respective analytical methods and of exercises where typical applications of the methods in modern experimental biology are discussed. | |||||
Lecture notes | 529-1042-00 A comprehensive script is available in the HCI-Shop. A summary of the part "Spektroskopie" defines the relevant material for the exam. 551-1003-00 Materials supporting the lectures and exercises will be made available via Moodle. | |||||
Literature | 529-1042-00 - Pretsch E., Bühlmann P., Badertscher M. Structure Determination of Organic Compounds, 5th revised and enlarged English edition, Springer-Verlag, Berlin 2009; - Pretsch E., Bühlmann P., Badertscher M., Spektroskopische Daten zur Strukturaufklärung organischer Verbindungen, fünfte Auflage, Springer-Verlag, Berlin 2010; - D.A. Skoog, J.J. Leary, Instrumentelle Analytik, Grundlagen, Geräte, Anwendungen, Springer, Berlin, 1996; - K. Cammann, Instrumentelle Analytische Chemie, Verfahren, Anwendungen, Qualitätssicherung, Spektrum Akademischer Verlag, Heidelberg, 2001; - R. Kellner, J.-M. Mermet, M. Otto, H.M. Widmer, Analytical Chemistry, Wiley-VCH Verlag, Weinheim, 1998; - K. Robards, P.R.Haddad, P.E. Jackson, Principles and practice of modern chromatographic methods, Academic Press, London, 1994; | |||||
Prerequisites / Notice | 529-1042-00 Prerequisites: - 529-1001-01 V "Allgemeine Chemie I (für Biol./Pharm.Wiss.)" - 529-1001-00 P "Allgemeine Chemie I (für Biol./Pharm.Wiss.)" - 529-1011-00 G "Organische Chemie I (für Biol./Pharm.Wiss.)" | |||||
551-1145-00L | Viral and non-Viral Vectors for Human Gene-Therapy - from Pathogens to Safe Medical Applications Does not take place this semester. No enrolment to this course at ETH Zurich. Book the corresponding module directly at UZH. UZH Module Code: BIO708 Mind the enrolment deadlines at UZH: https://www.uzh.ch/cmsssl/en/studies/application/mobilitaet.html | W | 2 credits | 3V | University lecturers | |
Abstract | Basic aspects of virology, the viral mechanisms for transfer of genetic material into cells, different vector-systems and target cells, animal models, specific applications for inborn diseases of the immune system and of metabolism, adverse effects, and new developments of vector systems will be taught. | |||||
Learning objective | Knowledge of important viral and non-viral vector systems. Knowledge of application in human diseases. Knowledge of limiting factors. | |||||
551-1153-00L | Systems Biology of Metabolism Number of participants limited to 15. | W | 4 credits | 2V | U. Sauer, N. Zamboni, M. Zampieri | |
Abstract | Starting from contemporary biological problems related to metabolism, the course focuses on systems biological approaches to address them. In a problem-oriented, this-is-how-it-is-done manner, we thereby teach modern methods and concepts. | |||||
Learning objective | Develop a deeper understanding of how relevant biological problems can be solved, thereby providing advanced insights to key experimental and computational methods in systems biology. | |||||
Content | The course will be given as a mixture of lectures, studies of original research and guided discussions that focus on current research topics. For each particular problem studied, we will work out how the various methods work and what their capabilities/limits are. The problem areas range from microbial metabolism to cancer cell metabolism and from metabolic networks to regulation networks in populations and single cells. Key methods to be covered are various modeling approaches, metabolic flux analyses, metabolomics and other omics. | |||||
Lecture notes | Script and original publications will be supplied during the course. | |||||
Prerequisites / Notice | The course extends many of the generally introduced concepts and methods of the Concept Course in Systems Biology. It requires a good knowledge of biochemistry and basics of mathematics and chemistry. | |||||
551-1171-00L | Immunology: from Milestones to Current Topics | W | 4 credits | 2S | B. Ludewig, N. C. Joller, J. Kisielow, C. Münz, A. Oxenius, L. Tortola, M. van den Broek | |
Abstract | Immunology: from Milestones to Current Topics 2020 | |||||
Learning objective | The course will cover the current grand topics in immunology: B cells, innate immunity, antigen presentation, tumor immunity, T cells, myeloid cells and stromal cells. For each topic two or four hours will be allocated. Historical milestone papers will be presented by the tutor/lecturer providing an overview on the development of the theoretical framework and critical technological advances. The students will read the historical milestone papers and contribute to the discussion. In the second part of the lecture, students will present recent high impact research papers that have emerged from the landmark achievements of the previously discussed milestone concepts. | |||||
Content | Milestones and current grand topics in immunology: B cells, innate immunity, antigen presentation, tumor immunity, T cells, myeloid cells and stromal cells. | |||||
Lecture notes | Original and review articles will be distributed by the lecturer. | |||||
Literature | Literaturunterlagen werden vor Beginn des Kurses auf folgender website zugänglich sein: Moodle Course https://moodle-app2.let.ethz.ch/course/view.php?id=13066 | |||||
551-1303-00L | Cellular Biochemistry of Health and Disease ![]() ![]() Number of participants limited to 20. | W | 4 credits | 2S | V. Korkhov, Y. Barral, T. Ishikawa, M. Jagannathan, R. Kroschewski, G. Neurohr, M. Peter, A. E. Smith, B. Snijder, K. Weis | |
Abstract | During this Masters level seminar style course, students will explore current research topics in cellular biochemistry focused on the structure, function and regulation of selected cell components, and the consequences of dysregulation for pathologies. | |||||
Learning objective | Students will work with experts toward a critical analysis of cutting-edge research in the domain of cellular biochemistry, with emphasis on normal cellular processes and the consequences of their dysregulation. At the end of the course, students will be able to introduce, present, evaluate, critically discuss and write about recent scientific articles in the research area of cellular biochemistry. | |||||
Content | Guided by an expert in the field, students will engage in classical round-table style discussions of current literature with occasional frontal presentations. Students will alternate as discussion leaders throughout the semester, with the student leader responsible to briefly summarize key general knowledge and context of the assigned primary research paper. Together with the faculty expert, all students will participate in discussion of the primary paper, including the foundation of the biological question, specific questions addressed, key methods, key results, remaining gaps and research implications. | |||||
Literature | The literature will be provided during the course | |||||
Prerequisites / Notice | The course will be taught in English. | |||||
551-1323-00L | Fundamentals of Biology II: Biochemistry and Molecular Biology ![]() | W | 4 credits | 4G | K. Locher, N. Ban, R. Glockshuber, E. Weber-Ban | |
Abstract | The course provides an introduction to Biochemistry / Molecular Biology with some emphasis on chemical and biophysical aspects. | |||||
Learning objective | Topics include the structure-function relationship of proteins / nucleic acids, protein folding, enzymatic catalysis, cellular pathways involved in bioenergetics and the biosynthesis and breakdown of amino acids, glycans, nucleotides, fatty acids and phospholipids, and steroids. There will also be a discussion of DNA replication and repair, transcription, and translation. | |||||
Lecture notes | none | |||||
Literature | mandatory: "Biochemistry", Autoren: Berg/Tymoczko/Stryer, Palgrave Macmillan, International edition (the English version will be preordered at the Polybuchhandlung) | |||||
Prerequisites / Notice | Some of the lectures are given in the English language. | |||||
636-0017-00L | Computational Biology | W | 6 credits | 3G + 2A | T. Stadler, T. Vaughan | |
Abstract | The aim of the course is to provide up-to-date knowledge on how we can study biological processes using genetic sequencing data. Computational algorithms extracting biological information from genetic sequence data are discussed, and statistical tools to understand this information in detail are introduced. | |||||
Learning objective | Attendees will learn which information is contained in genetic sequencing data and how to extract information from this data using computational tools. The main concepts introduced are: * stochastic models in molecular evolution * phylogenetic & phylodynamic inference * maximum likelihood and Bayesian statistics Attendees will apply these concepts to a number of applications yielding biological insight into: * epidemiology * pathogen evolution * macroevolution of species | |||||
Content | The course consists of four parts. We first introduce modern genetic sequencing technology, and algorithms to obtain sequence alignments from the output of the sequencers. We then present methods for direct alignment analysis using approaches such as BLAST and GWAS. Second, we introduce mechanisms and concepts of molecular evolution, i.e. we discuss how genetic sequences change over time. Third, we employ evolutionary concepts to infer ancestral relationships between organisms based on their genetic sequences, i.e. we discuss methods to infer genealogies and phylogenies. Lastly, we introduce the field of phylodynamics, the aim of which is to understand and quantify population dynamic processes (such as transmission in epidemiology or speciation & extinction in macroevolution) based on a phylogeny. Throughout the class, the models and methods are illustrated on different datasets giving insight into the epidemiology and evolution of a range of infectious diseases (e.g. HIV, HCV, influenza, Ebola). Applications of the methods to the field of macroevolution provide insight into the evolution and ecology of different species clades. Students will be trained in the algorithms and their application both on paper and in silico as part of the exercises. | |||||
Lecture notes | Lecture slides will be available on moodle. | |||||
Literature | The course is not based on any of the textbooks below, but they are excellent choices as accompanying material: * Yang, Z. 2006. Computational Molecular Evolution. * Felsenstein, J. 2004. Inferring Phylogenies. * Semple, C. & Steel, M. 2003. Phylogenetics. * Drummond, A. & Bouckaert, R. 2015. Bayesian evolutionary analysis with BEAST. | |||||
Prerequisites / Notice | Basic knowledge in linear algebra, analysis, and statistics will be helpful. Programming in R will be required for the project work (compulsory continuous performance assessments). We provide an R tutorial and help sessions during the first two weeks of class to learn the required skills. However, in case you do not have any previous experience with R, we strongly recommend to get familiar with R prior to the semester start. For the D-BSSE students, we highly recommend the voluntary course „Introduction to Programming“, which takes place at D-BSSE from Wednesday, September 12 to Friday, September 14, i.e. BEFORE the official semester starting date http://www.cbb.ethz.ch/news-events.html For the Zurich-based students without R experience, we recommend the R course Link, or working through the script provided as part of this R course. | |||||
636-0108-00L | Biological Engineering and Biotechnology Attention: This course was offered in previous semesters with the number: 636-0003-00L "Biological Engineering and Biotechnology". Students that already passed course 636-0003-00L cannot receive credits for course 636-0108-00L. | W | 4 credits | 3V | M. Fussenegger | |
Abstract | Biological Engineering and Biotechnology will cover the latest biotechnological advances as well as their industrial implementation to engineer mammalian cells for use in human therapy. This lecture will provide forefront insights into key scientific aspects and the main points in industrial decision-making to bring a therapeutic from target to market. | |||||
Learning objective | Biological Engineering and Biotechnology will cover the latest biotechnological advances as well as their industrial implementation to engineer mammalian cells for use in human therapy. This lecture will provide forefront insights into key scientific aspects and the main points in industrial decision-making to bring a therapeutic from target to market. | |||||
Content | 1. Insight Into The Mammalian Cell Cycle. Cycling, The Balance Between Proliferation and Cancer - Implications For Biopharmaceutical Manufacturing. 2. The Licence To Kill. Apoptosis Regulatory Networks - Engineering of Survival Pathways To Increase Robustness of Production Cell Lines. 3. Everything Under Control I. Regulated Transgene Expression in Mammalian Cells - Facts and Future. 4. Secretion Engineering. The Traffic Jam getting out of the Cell. 5. From Target To Market. An Antibody's Journey From Cell Culture to The Clinics. 6. Biology and Malign Applications. Do Life Sciences Enable the Development of Biological Weapons? 7. Functional Food. Enjoy your Meal! 8. Industrial Genomics. Getting a Systems View on Nutrition and Health - An Industrial Perspective. 9. IP Management - Food Technology. Protecting Your Knowledge For Business. 10. Biopharmaceutical Manufacturing I. Introduction to Process Development. 11. Biopharmaceutical Manufacturing II. Up- stream Development. 12. Biopharmaceutical Manufacturing III. Downstream Development. 13. Biopharmaceutical Manufacturing IV. Pharma Development. | |||||
Lecture notes | Handout during the course. |
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