Search result: Catalogue data in Spring Semester 2019

Biology Bachelor Information
First Year, 2. Semester
Compulsory Subjects First Year Examinations
NumberTitleTypeECTSHoursLecturers
401-0292-00LMathematics II Information O5 credits3V + 2UE. W. Farkas
AbstractMathematics I/II is an introduction to one- and multidimensional calculus
and linear algebra emphasizing on applications.
ObjectiveStudents understand mathematics as a language for modelling and as a tool for
solving practical problems in natural sciences.
Students can analyze models, describe solutions qualitatively or calculate
them explicitly if need be. They can solve examples as well as their practical
applications manually and using computer algebra systems.
Content## Komplexe Zahlen ##
- Kartesische und Polar-Darstellung
- Rechnen mit komplexen Zahlen
- Lösungen algebraischer Gleichungen

## Lineare Algebra - Fortsetzung ##
- Komplexe Vektoren und Matrizen
- Weitere Arithmetische Aspekte
- LGS und Gauss-Verfahren

## Lineare DGL 2. Ordnung und Systeme 1. Ordnung ##
- Lösen mit Eigenwerten/-vektoren.
- Qualitative Lösungsverhalten
- Ebene und Räumliche (Lösungs-)Kurven

## Integral- und Differentialrechnung (II) ##
- Hauptsatz der Differential/Integralrechnung
- Uneigentliche Integrale
- Anwendungen
- Gebiets- und Volumenintegral
- - - - - - - - - - - - - - - - - - - - -
- Partielle Funktionen und Ableitungen
- Extrema
- Tangentialebene
- Verallgemeinerte Kettenregel

## Vektoranalysis ##
- Potentialtheorie
- Formel von Green
- Rotation und Divergenz
- Oberflächenintegral, Fluss
- Integralsätze von Gauss und Stokes.

## Potenzreihen ##
- Reihen
- Taylor-Reihe
- Potenzreihen und Anwendungen
Lecture notesIn Ergänzung zu den Vorlesungskapiteln der Lehrveranstaltungen fassen wir
wichtige Sachverhalte, Formeln und weitere Ausführungen jeweils in einem
Vademecum zusammen.

Dabei gilt:

* Die Skripte ersetzen nicht die Vorlesung und/oder die Übungen!
* Ohne den Besuch der Lehrveranstaltungen verlieren die Ausführungen
ihren Mehrwert.
* Details entwickeln wir in den Vorlesungen und den Übungen, um die hier
bestehenden Lücken zu schliessen.
* Prüfungsrelevant ist, was wir in der Vorlesung und in den Übungen behandeln.
LiteratureSiehe auch Lernmaterial > Literatur

**Th. Wihler**
Mathematik für Naturwissenschaften, 2 Bände:
Einführung in die Analysis, Einführung in die Lineare Algebra;
Haupt-Verlag Bern, UTB.

**H. H. Storrer**
Einführung in die mathematische Behandlung der Naturwissenschaften I; Birkhäuser.
Via ETHZ-Bibliothek:
<https://link.springer.com/book/10.1007/978-3-0348-8598-0>

**Ch. Blatter**
Lineare Algebra; VDF
auch als [pdf]<https://people.math.ethz.ch/~blatter/linalg.pdf>
Prerequisites / Notice## Voraussetzungen ##
Mathematik I <Link>

## Übungen und Prüfungen ##
+ Die Übungsaufgaben (inkl. Multiple-Choice) sind ein wichtiger Bestandteil
der Lehrveranstaltung.
+ Es wird erwartet, dass Sie mindestens 75 % der wöchentlichen Serien bearbeiten
und zur Korrektur einreichen.
+ Der Prüfungsstoff ist eine Auswahl von Themen aus Vorlesung und Übungen. Für
eine erfolgreiche Prüfung ist die konzentrierte Bearbeitung der Aufgaben
unerlässlich.

## Einschreibung in die Übungen ##
Die Einschreibung in die Übungsgruppen erfolgt online.

## Zugang Übungsserien ##
Erfolgt auch online.
551-0106-00LFundamentals of Biology IBO5 credits5GA. Wutz, S. P. Hart, O. Y. Martin, E. B. Truernit, S. Wielgoss, S. C. Zeeman
AbstractThis course is an introduction into the basic principles of evolution, diversity, animal/plant form and function, and ecology.
ObjectiveIntroduction into aspects of modern biology and fundamental biological concepts.
ContentThe course is divided into distinct chapters
1. Mechanisms of evolution.
2. The evolutionary history of biological diversity (bacteria and archea, protists, plants and animals).
3. Plant form and function (growth and development, nutrient and resource acquisition, reproduction and environmental responses).
4. Animal form and function (nutrition, immune system, hormones, reproduction, nervous system and behaviour).
5. Ecology (population ecology, community ecology, ecosystems and conservation ecology).
Lecture notesNo script
LiteratureThis course is based on the textbook 'Biology' (Campbell, Reece, 9th edition). The structure of the course follows that of the book. It is recommended to purchase the English version.
Prerequisites / NoticePart of the contents of the book need to be learned through independent study.
529-1012-00LOrganic Chemistry II (for Students of Biology, Pharmaceutical Sci., and Health Sci. & Tech.)O5 credits5GC. Thilgen
AbstractThe relationship between structure and reactivity of organic molecules is elaborated by studying the mechanisms of the fundamental types of organic reactions. A basic synthesis repertoire is acquired.
ObjectiveUnderstanding the mechanisms of the fundamental types of organic reactions. Particular emphasis is placed on the relationship between structure and reactivity. A basic repertoire for the synthesis of small organic molecules is acquired. Weekly problem solving lessons provide a deeper understanding of the concepts presented during the lecture.
ContentThe basic reactions of organic chemistry and their mechanisms. Chemistry of the most important functional groups, the carbonyl group in particular.

For details, see German version.
Lecture notesPrinted or electronic lecture notes are available. Problem sets, answer keys, and other course materials can be downloaded from the Moodle course "Organic Chemistry II" of the current semester (https://moodle-app2.let.ethz.ch).
LiteratureNo set textbooks. Optional texts will be proposed at the beginning of the class and in the lecture notes (cf. course 529-1011-00L Organic Chemistry I).
Prerequisites / NoticeAttendance of the course 529-1011-00, "Organic Chemistry I for Biology/Pharmaceutical Sciences/HST".
402-0072-00LPhysicsO5 credits5V + 2UT. M. Ihn
AbstractIntroduction to the concepts and tools in physics with the help of demonstration experiments: mechanics, statistical mechanics, electromagnetism and optics.
ObjectiveThe concepts and tools in physics, as well as the methods of an experimental science are taught. The student should learn to identify, communicate and solve physical problems in his/her own field of science.
Content1. Fundamental concepts of natural sciences

I. MECHANICS
2. Motion in one dimension
3. Motion in two and three dimensions
4. Newton's laws
5. Applications of Newton's laws
6. Forces
7. Work and energy, power, energy conservation
8. Momentum conservation, collisions
9. Angular momentum conservation

II. STATISTICAL MECHANICS
10. Concentration and density
11. Pressure and work
12. Entropy, Second Law of Thermodynamics
13. Temperature and heat
14. First Law of Thermodynamics
15. The Boltzmann-Factor

III. ELECTROMAGNETISM
16. Geometrical optics
17. Light as an electromagnetic wave
18. Quantum aspects of light
Lecture notesT. Ihn: Physics for Students in Biology and Pharmazeutical Sciences (unpublished lecture notes)
LiteratureThe lecture contains elements of:

Paul A. Tipler and Gene P. Mosca, "Physik für Wissenschaftler und Ingenieure", Springer Spektrum.

Feynman, Leighton, Sands, "The Feynman Lectures on Physics", Volume I (http://www.feynmanlectures.caltech.edu/)

Ruth Chabay and Bruce Sherwood, "Matter and Interactions" (Wiley)
Prerequisites / NoticePrerequisites: Mathematics I
401-0643-00LStatistics I Information O3 credits2V + 1UM. Kalisch
AbstractIntroduction to basic methods and fundamental concepts of statistics and probability theory for non-mathematicians. The concepts are presented on the basis of some descriptive examples.
ObjectiveGrundverständnis für die Gesetze des Zufalls und des Denkens in Wahrscheinlichkeiten. Kenntnis von Methoden zur Darstellung von Daten und zu ihrer quantitativen Interpretation unter Berücksichtigung der statistischen Unsicherheit.
ContentModelle und Statistik für Zähldaten: Diskrete Wahrscheinlichkeitsmodelle, Binomial-Verteilung, Tests und Vertrauensintervalle für eine Wahrscheinlichkeit, Poisson-Verteilung und deren Statistik, weitere Verteilungen.
Modelle und Statistik für Messdaten: Beschreibende Statistik, Zufallsvariablen mit Dichten, t-Test und Wilcoxon-Test und zugehörige Vertrauensintervalle.
Regression: Das Modell der linearen Regression, Tests und Vertrauensintervalle, Residuenanalyse.
Lecture notesEs steht ein kurzes Skript zur Verfügung.
Literature- W. A. Stahel, Statistische Datenanalyse: Eine Einführung für Naturwissenschaftler, 5. Aufl., Vieweg, Braunschweig/Wiesbaden, 2007
Prerequisites / NoticeVoraussetzungen: Grundlegende Mathematik-Kenntnisse wie sie im ersten Semester erworben werden.
First Year Laboratory Courses
NumberTitleTypeECTSHoursLecturers
551-0102-01LFundamentals of Biology I Information Restricted registration - show details
Registrations via myStudies until 30.1.2019 at the latest. Subsequent registrations will not be considered.
O6 credits8PM. Gstaiger, T. A. Beyer, M. Kopf, R. Kroschewski, M. Künzler, D. Ramseier, M. Stoffel, E. B. Truernit, A. Wutz
AbstractThis 1st year Laboratory course introduces the student to the entire range of classical and modern molecular biosciences. During this course (Praktikum GL BioI) the students will do three praktikum days in:
- Biochemistry
- Cell Biology I
- Microbiology
- Plant Anantomy & Ecology
(total of 12 experiments)

Each experiment takes one full day.
ObjectiveIntroduction to theoretical and experimental biology

General Praktikum-information and course material can be obtained from Moodle

The general Praktikum information (Assignment list, Instructions and Schedule & Performance Sheet) will also be sent to the students directly (E-mail).
ContentThe class is divided into four blocks: Biochemistry, Microbiology, Plant biology & Ecology and Cell Biology I.

BIOCHEMISTRY:
- TAQ Analysis (part 1): Protein purification
- TAQ Analysis (part 2): SDS-Gelelektrophoresis
- TAQ Analysis (part 3): Activity test of the purified protein

MICROBIOLOGY:
Day 1: Basics for the work with microorganisms & Isolation of microorganisms from the environment
Day 2: Morphology and diagnostics of bacteria & Antimicrobial agents
Day 3: Morphology of fungi & Microbial physiology and interactions

PLANT BIOLOGY & ECOLOGY
- Microscopy and plant cell anatomy
- Plant organ anatomy and gene expression
- Ecology

CELL BIOLOGY I:
- Anatomy of mouse & Blood cell determination
- Histology
- Chromosome preparation and analysis
Lecture notesLaboratory manuals

BIOCHEMISTRY:
- The protocols can be downloaded from: Moodle

MICROBIOLOGY:
- The protocols can be found from: Moodle
- You HAVE TO print the pdf-file, which is also used as the lab manual during the experiments. Therefore, you have to have the Script always with you, when doing the experiments in Microbiology.

PLANT BIOLOGY & ECOLOGY:
- The protocols can be found from: Moodle

CELL BIOLOGY I:
- The handouts of the experiments entitled "Histology" will be provided
- The protocols of "Anatomy of mouse & Blood cell determination" and "Chromosome preparation and analysis" can be found from: Moodle
LiteratureNone
Prerequisites / NoticePLEASE NOTE THE FOLLOWING RULES

Your attendance is obligatory and you have to attend all 12 Praktikum days of GL BioI. Absences are only acceptable if you are able to provide a Doctor’s certificate. The original Dr's certificate has to be given to Dr. M. Gstaiger (HPM F43) within five days of the absence of the Praktikum day.

If there will be any exceptional or important situations then you should directly contact the Director of Studies of D-Biol, who will decide if you are allowed to miss a Praktikum day or not.

HIGHLY IMPORTANT!!

1. Due to the increased number of students, the official Praktikum registration has to be done, using myStudies, preferably at the end of HS18 but not later than Wednesday January 30, 2019.

2. Later registration is NOT possible and can NOT be accepted!

3. The course registration for FS2019 is usually possible at the end of Autumn semester 2018 and you will obtain an E-mail from the Rectorate when the course registration using myStudies is possible.

Students can register for a practice group via myStudies. As soon as the course unit is registered in myStudies, a text box appears indicating that a group can be selected. Accordingly, students can select a group in the next step. If more than 240 students register, the surplus students will be placed on a waiting list and then allocated by the course responsible.

Extra Praktikum days have to be organized if more than 220 - 240 students will attend the Praktikum. The group division is random and the reserved Extra Praktikum days are:

3.6 / 4.6 / 6.6

The Praktikum GL BioI will take place during the following days and therefore, you have to make sure already now that you will not have any other activities / commitments during these days:

PRAKTIKUM DAYS FS18 (Thursdays):

21.2 / 28.2 / 7.3 / 14.3 / 21.3 / 28.3 / 4.4 / 11.4 / 2.5 / 9.5 / 16.5 / 23.5

No Praktikum during the Easter vacation: 19.4.-26.4. 2019

EXTRA PRAKTIKUM DAYS (if necessary)

3.6 / 4.6 / 6.6
2. Year, 4. Semester
Core Courses
NumberTitleTypeECTSHoursLecturers
529-1024-00LPhysical Chemistry II (for Biology and Pharmacy) Information O4 credits2V + 1UR. Riek
AbstractKinetics of chemical and biochemical reactions, in particular catalyzed reactions. Surface- and transport-phenomena, characterization of open systems.
ObjectiveKnowledge on the basics of time dependent process in chemical and biological systems.
ContentGrundbegriffe: Stofftransport, Transport in kontinuierlichen Systemen, Wärmeleitung, Viskosität von Gasen, Laminare Strömung durch Rohre, Ionenleitfähigkeit, Elektrisch geladene Grenzflächen, Elektrophorese, Sedimentation im Zentrifugalfeld, Eigenschaften der Plasmamembran, Transport durch Membranen, Membranpotentiale Reaktionsgeschwindigkeitsgesetze, Elementarreaktionen und zusammengesetzte Reaktionen, Molekularität, Reaktionsordnung, Experimentelle Methoden der Reaktionskinetik. Einfache Theorie chemischer Reaktionen: Temperaturabhängigkeit der Gleichgewichtskonstante und Arrheniusgleichung, Stosstheorie, Reaktionsquerschnitte, Theorie des Übergangszustandes. Zusammengesetzte Reaktionen: Reaktionsmechanismen und komplexe kinetische Systeme, Näherungsverfahren. Enzymkinetik. Kinetik geladener Teilchen. Diffusion und diffusionskontrollierte Reaktionen.
Lecture notesHandouts werden in der Vorlesung verteilt
LiteratureAdam, G., Läuger, P., Stark, G., 2003: Physikalische Chemie und Biophysik, 4. Aufl., Springer Verlag, Berlin.
Prerequisites / NoticeVoraussetzungen: Physikalische Chemie I
551-0104-00LFundamentals of Biology II Information Restricted registration - show details
Registrations via myStudies until 30.1.2019 at the latest. Subsequent registrations will not be considered.
O8 credits8PM. Gstaiger, E. Dultz, C. H. Giese, W. Kovacs, D. Santelia, H. Stocker, U. Suter, S. Werner
AbstractThis introductory Laboratory course introduces the student to the entire range of classical and modern molecular biosciences. In the second year (Praktikum GL Bio II) the students will perform three praktikum days in:
- Molecular Biology
- Plant Physiology
- Genetics and
- Cell Biology II.

(total of 12 experiments)

Each experiment takes one full day.
ObjectiveIntroduction to theoretical and experimental biology
Moodle www-link for general Praktikum-information and course material: Moodle

The general Praktikum information (Assignment list, Instructions and Schedule & Performance Sheet) will also be sent to the students directly (E-mail).
ContentThe class is divided into four blocks: Cell Biology II, Genetics, Molecular Biology and Plant Physiology. One block lasts three weeks.

CELL BIOLOGY II:
- Cells: Cell types & staining methods, cell fusion & cell motility,
- Tissue and development: histology of mice embryos & embryogenesis
- Repair mechanisms: DNA repair & wound healing,

GENETICS:
- Yeast genetics
- Drosophila genetics
- Human genetics

MOLECULAR BIOLOGY
- Molecular biology & protein crystallization
- Enzyme kinetics
- Redox potential & stability of a protein

PLANT PHYSIOLOGY:
- Plants and light
- Phytohormones and other growth factors
- Molecular biology of systemic gene silencing
- Literature and presentations

The students will also prepare short presentations (approx. 10 min) of the various topics within this course.
Lecture notesLaboratory manuals

CELL BIOLOGY II
- The protocols can be downloaded from: Moodle

MOLECULAR BIOLOGY:
- The protocols can be found from: Moodle

PLANT PHYSIOLOGY
- The protocols can be found from: Moodle

GENETICS
- The protocols can be found from: Moodle
Prerequisites / NoticeTHE PRAKTIKUM RULES:

Your attendance is obligatory and you have to attend all 12 Praktikum days. Absences are only acceptable if you are able to provide a Doctor’s certificate. The original Dr's certificate has to be given to Dr. M. Gstaiger (HPM F43) within five days of the absence of the Praktikum day.

If there will be any exceptional or important situations then you should directly contact the Director of Studies of D-Biol, who will decide if you are allowed to miss a Praktikum day or not.

HIGHLY IMPORTANT!!

1. Due to the increased number of students, the official Praktikum registration has to be done, using myStudies, preferably at the end of HS18 but not later than Wednesday January 30, 2019.

2. Later registration is NOT possible and can NOT be accepted!

3. The course registration for FS19 is usually possible at the end of HS18 and you will obtain an E-mail from the Rectorate when the course registration using myStudies is possible.

Students can register for a practice group via myStudies. As soon as the course unit is registered in myStudies, a text box appears indicating that a group can be selected. Accordingly, students can select a group in the next step. If more than 180 students register, the surplus students will be placed on a waiting list and then allocated by the course responsible.


The Praktikum GL BioII FS19 will take place during the following days and therefore, you have to make sure already now that you do not have any other activities & commitments during these days:

PRAKTIKUM DAYS DURING FS19 (Fridays):

22.2 / 1.3 / 8.3 / 15.3 / 22.3 / 29.3 / 5.4 / 12.4 / 3.5 / 10.5 / 17.5 / 24.5

No Praktikum during the Easter break: 19.4.-26.4. 2019
551-1298-00LGenetics, Genomics, Bioinformatics Information O4 credits2V + 2UE. Hafen, C. Beyer, B. Christen, U. K. Genick, J. Piel, R. Schlapbach, G. Schwank, S. Sunagawa, K. Weis, A. Wutz
AbstractThe course provides the basis of modern genetics, genomics and bioinformatics. A special focus is placed on the use of these tools for the understanding of biological processes in bacteria, model organisms and humans. The unit uses the principle of blended learning consisting of self-study modules in Moodle, tasks and input lectures by experts from the department.
ObjectiveAt the end of this course you know the most important genetic tools in different organisms. You can use the essential methods in bioinformatics by using online tools. You know the advantages and disadvantages of various model organisms to understand biological processes. You know the various mutagenesis methods and other tools to disrupt gene function and can discuss their merits and drawbacks. You are aware of the difficulties in choosing a phenotype for selection in a mutagenesis experiment. Finally, you can describe how you would study a specific biological process by choosing a model organism and the appropriate genetic or genomic tools.
ContentThe appearance and function of an organism (phenotype) is determined by the interplay between its genome (genotype) and the environment: Genotype + environment = phenotype. Understanding these interactions to the point where we can ultimately predict the phenotype from knowledge of the genotype and environmental factors is one oft the great challenges of biology.

In the course Bio IA you learnt about the composition and function of the genome and how it is inherited. The goal of this course is that you learn how genetic, genomic and bioinformatics methods are used to understand biological processes (the connection between genotype and phenotype).

In the first two weeks you will renew and deepen your knowledge of the basic principles of genetics and genomics in interactive learning modules on the Moodle platform. This is followed by an introduction of the basic tools of bioinformatics. You learn to search for specific genome sequences, to align them and to construct pedigrees of related genes.

After you have mastered the basic principles you will learn how to study biological processes either by inactivating specific genes or by randomly mutagenizing the entire genome. You will be introduced to different model organisms (bacteria, yeast, Drosophila, mouse) and humans.

Conventional genetic methods rely on the alteration of the function of single genes and on the observation of the effect on the organism (phenotype). Based on the observed phenotype one deduces the normal function of the gene. This is a strong simplification since, even if environmental factors are controlled, phenotypes are very rarely controlled by a single gene. It is therefore important to understand the influence of the entire genome in conjunction with environmental factors on a given phenotype (e.g. a human disease). Modern methods in genomics now permit first approaches in this direction. Therefore, the focus of the second part of the unit is on genome-wide association studies. You learn, how the influence of the entire genome on a specific phenotype is detected and what challenges are involved in the analysis and the interpretation of the results. We will examine these methods in model organisms and humans. You will also learn how the genome of cancer cells changes under the constant selection for these cells to survive and how this genome analysis provides new insights into diagnosis and therapy.

This course is based on active learning. Each week consists of a learning unit with clearly defined learning goals. In the first two hours you will learn the basics from texts, videos and questionnaires on the Moodle platform. In the third lecture an expert on the topic of the week (e.g. genetic screens in yeast) from the department will give an input lecture that builds on the basic knowledge that you acquired. In the fourth lecture you will discuss the tests and topics of the week with the expert. During the semester you will have access to assistants and lecturers via the Moodle online forum.

At the beginning of the learning unit you will take a short multiple-choice test on the content of the course. This formative assessment does not count for your final grade but gives you and us a way to determine where you stand also in relation to your fellow students. A similar formative assessment test will be given at the end of the semester. In this way, we can determine the learning gain during the course and obtain a quantitative feedback on the course. The exam is based on the learning goals of the individual chapters and the questions in the formative assessments.
Lecture notesThe learning material and slides of the input lectures are available on Moodle. There you will also find further information (articles, links, videos).
LiteratureAll texts and references will be available on Moodle. To follow the most recent developments in this rapidly evolving field follow the following experts on Twitter:
@dgmacarthur
@EricTopol
und/oder @ehafen
Prerequisites / NoticeThe course builds on the course Bio IA, in particular on that course's content regarding genetics and genomics. The course is based on self-learning units on Moodle, input lectures by experts from D-BIOL and exercises.
551-0108-00LFundamentals of Biology II: Plant BiologyO2 credits2VO. Voinnet, W. Gruissem, S. C. Zeeman
AbstractWater balance, assimilation, transport in plants; developmental biology, stress physiology.
ObjectiveWater balance, assimilation, transport in plants; developmental biology, stress physiology.
Lecture notesPlant Biology: Handouts of the powerpoint presentation will be distributed. It can also be viewed in a password-protected web link.
LiteratureSmith, A.M., et al.: Plant Biology, Garland Science, New York, Oxford, 2010
551-0110-00LFundamentals of Biology II: MicrobiologyO2 credits2VJ. Vorholt-Zambelli, W.‑D. Hardt, J. Piel
AbstractBacterial cell biology, molecular genetics, gene regulation, growth physiology, metabolism (Bacteria and Archaea), natural products, microbial interactions
ObjectiveBasic principles of cell structure, growth physiology, energy metabolism, gene expression and regulation. Biodiversity of Bacteria and Archaea. Phylogeny and evolution.
ContentBacterial cell biology, molecular genetics, gene regulation, growth physiology, metabolism (Bacteria and Archaea), natural products, microbial interactions
LiteratureBrock, Biology of Microorganisms (Madigan, M.T. and Martinko, J.M., eds.), 14th ed., Pearson Prentice Hall, 2015
Elective Blocks
Biodiversity
NumberTitleTypeECTSHoursLecturers
551-1174-00LSystems BiologyO4 credits2V + 2UU. Sauer, K. M. Borgwardt, J. Stelling, N. Zamboni
AbstractThe 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 will obtain first experience with programming their own analyses/models for data analysis/interpretation.
ObjectiveWe will teach little if any novel biological knowledge or analysis methods, but focus on training the ability of use existing knowledge (for example from enzyme kinetics, regulatory mechanisms or analytical methods) to understand biological problems that arise when considering molecular elements in their context and to translate some of these problems into a form that can be solved by computational methods. Specific goals are:
- 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
ContentDuring 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 notesKein Skript
LiteratureThe 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
376-0152-00LAnatomy and Physiology II Information O5 credits4VM. Ristow, K. De Bock, M. Kopf, L. Slomianka, C. Spengler
AbstractBasic knowledge of the anatomy and physiology of the gastrointestinal tract, endocrine organs, urinary system and the reproductive system. Knowlewdge of the basic mechanisms of pathobiology. Study of all human tissues and selected organs by examining slides under the light microscope.
ObjectiveFoundations of human anatomy and physiology and basics of clinical pathophysiology
ContentShort overview of human anatomy, physiology and general pathology.
3rd semester:
Principles of histology and embryology. Anatomy and physiology: nervous system, muscle, sensory organs, circulatory system, respiratory system.
4rd semester:
Anatomy and physiology: gastrointestinal tract, endocrine system, metabolism and thermoregulation, integumentary system, blood and immune system, urinary system, circadian rhythm, reproductive system, pregnancy and birth.
LiteratureAnatomie: Martini, Timmons, Tallitsch, "Anatomie", Pearson; oder Schiebler, Korf, "Anatomie", Steinkopff / Springer; oder Spornitz, "Anatomie und Physiologie, Lehrbuch und Atlas für Pflege-und Gesundheitsfachberufe", Springer

Physiologie: Thews/Mutschler/Vaupel: Anatomie, Physiologie, Pathophysiologie des Menschen,
Wissenschaftliche Verlagsgesellschaft, Stuttgart

oder

Schmidt/Lang/Thews: Physiologie des Menschen, Springer-Verlag, Heidelberg
Prerequisites / NoticeDer Besuch der Anatomie und Physiologie I - Vorlesung ist Voraussetzung, da die Anatomie und Physiologie II - Vorlesung auf dem Wissen der im vorangegangenen Semester gelesenen Anatomie und Physiologie I - Vorlesung aufbaut.
701-0360-00LSystematic Biology: Plants Restricted registration - show details O5 credits2V + 3PA. Leuchtmann
AbstractThe lecture provides an overview of the diversity of ferns and seed-plants. The fundamentals of systematics are given considering morphological, phylogenetic and ecological aspects. Regarding plant species, emphasis is laid on the flora of Switzerland, but also examples of pharmaceutical relevance and crop plants will be included.
ObjectiveStudents know:
- the fundamentals of plant systematics
- the higher-level plant groups based on morphological and biological characteristics
- selected families of flowering plants
- selected species and their ecology, with special focus on the flora of Switzerland
- examples of medicinal and crop plants
- ecological factors of sites and the most important vegetation types of the lowlands.
ContentDie Vorlesung gibt einen Überblick über Moose, Farne, Gymnospermen und Angiospermen. Ausgewählte Familien der Angiospermen werden ausführlich behandelt. Weitere Themen sind Grundlagen der Pflanzensystematik, Generationswechsel, phylogenetische Stammbäume, morphologische Begriffe, sowie Lebensweise und Ökologie der Pflanzen. Anhand ausgewählter Beispiele wird auf die Bedeutung der Pflanzen als Arznei-, Zeiger- und Nutzpflanzen eingegangen. Zudem wird eine Übersicht über Standorteigenschaften und Vegetation des Tieflandes in der Schweiz gegeben.

Im praktischen Teil lernen die Studierenden Merkmale von Blütenpflanzen zu analysieren und üben das Bestimmen von Pflanzenarten. Auf Exkursionen werden Artkenntnisse vermittelt und ein Einblick gegeben in Flora und Vegetation ausgewählter Standorte im Schweizer Mittelland, wobei auch einheimische Arzneipflanzen berücksichtigt werden.
LiteratureBaltisberger et al., Systematische Botanik. Einheimische Farn- und Samenpflanzen. vdf Hochschulverlag AG an der ETH Zürich (4. Aufl. 2013)
Hess et al., Bestimmunsschlüssel zur Flora der Schweiz. Springer, Basel (7. Aufl. 2015)

Baltisberger, Conradin, Frey & Rudow, 2016: eBot6. Internetapplikation.
Für Studierende frei zugänglich unter http://www.balti.ethz.ch/tiki-index.php?page=eBot6.
Prerequisites / NoticeFür Studierende der Pharmazeutischen Wissenschaften Bsc obligatorisch, für Studierende Biologie Bsc und Umweltnaturwissenschaften Bsc mit Vertiefungen in Ökologie und Evolution (Biologie), Wald und Landschaft oder Umweltbiologie besonders empfohlen.
701-0264-01LSupplementary Course Systematic Botany Restricted registration - show details
Prerequisite: successful participation in 701-0360-00L Systematic Biology: Plants. It is recommended to enroll for both lectures in the same semester.
E-1 credit2PA. Leuchtmann
AbstractBotanical excursions to Lower Engiadina providing extended systematic-botanical knowledge
ObjectiveParticipants know characters of important plant families and are able to assign species accordingly. They have gained extended knowledge of plant species, particularly of those relevant for the exam, and have received insight into flora and vegetation of the Lower Engiadina valley.
ContentExkursion in der montanen Stufe bei Klosters am ersten Tag, zwei weitere Exkursionen im Unterengadin. Vertiefung der systematisch-taxonomischen Kenntnisse und Einblick in Flora und Vegetation eines zentralalpinen Trockentals. Gruppenarbeit mit ausgewählten, neuen Pflanzenarten.
LiteratureBaltisberger et al., Systematische Botanik. Einheimische Farn- und Samenpflanzen. vdf Hochschulverlag AG an der ETH Zürich (4. Aufl. 2013)

Hess et al. 2015. Bestimmunsschlüssel zur Flora der Schweiz. 7. Aufl., Springer, Basel.
Prerequisites / NoticeDer Kurs richtet sich an Studierende Biologie Bsc und Umweltnaturwissenschaften Bsc; auch Studierende Pharmazeutische Wissenschaften Bsc sind willkommen.

Der Besuch von "701-0360-00L Systematische Biologie: Pflanzen" wird vorausgesetzt, da der Kurs darauf aufbaut.

Diese Lehrveranstaltung ist auf maximal 50 Teilnehmende beschränkt. Schriftliche Anmeldungen erforderlich, die nach Reihenfolge des Eingangs berücksichtigt werden.

Kosten für Verpflegung und Unterkunft in Mehrbettzimmern (2 Nächte) müssen von den Teilnehmern übernommen werden (Fr. 80.-).
701-0245-00LIntroduction to Evolutionary BiologyO2 credits2VG. Velicer, S. Wielgoss
AbstractThis course introduces important questions about the evolutionary processes involved in the generation and maintenance of biological diversity across all domains of life and how evolutionary science investigates these questions.
ObjectiveThis course introduces important questions about the evolutionary processes involved in the generation and maintenance of biological diversity across all domains of life and how evolutionary science investigates these questions. The topics covered range from different forms of selection, phylogenetic analysis, population genetics, life history theory, the evolution of sex, social evolution to human evolution. These topics are important for the understanding of a number of evolutionary problems in the basic and applied sciences.
ContentTopics likely to be covered in this course include research methods in evolutionary biology, adaptation, evolution of sex, evolutionary transitions, human evolution, infectious disease evolution, life history evolution, macroevolution, mechanisms of evolution, phylogenetic analysis, population dynamics, population genetics, social evolution, speciation and types of selection.
LiteratureTextbook:
Evolutionary Analysis
Scott Freeman and Jon Herron
5th Edition, English.
Prerequisites / NoticeThe exam is based on lecture and textbook.
Cellular and Molecular Biology
NumberTitleTypeECTSHoursLecturers
551-1174-00LSystems BiologyO4 credits2V + 2UU. Sauer, K. M. Borgwardt, J. Stelling, N. Zamboni
AbstractThe 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 will obtain first experience with programming their own analyses/models for data analysis/interpretation.
ObjectiveWe will teach little if any novel biological knowledge or analysis methods, but focus on training the ability of use existing knowledge (for example from enzyme kinetics, regulatory mechanisms or analytical methods) to understand biological problems that arise when considering molecular elements in their context and to translate some of these problems into a form that can be solved by computational methods. Specific goals are:
- 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
ContentDuring 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 notesKein Skript
LiteratureThe 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
376-0152-00LAnatomy and Physiology II Information O5 credits4VM. Ristow, K. De Bock, M. Kopf, L. Slomianka, C. Spengler
AbstractBasic knowledge of the anatomy and physiology of the gastrointestinal tract, endocrine organs, urinary system and the reproductive system. Knowlewdge of the basic mechanisms of pathobiology. Study of all human tissues and selected organs by examining slides under the light microscope.
ObjectiveFoundations of human anatomy and physiology and basics of clinical pathophysiology
ContentShort overview of human anatomy, physiology and general pathology.
3rd semester:
Principles of histology and embryology. Anatomy and physiology: nervous system, muscle, sensory organs, circulatory system, respiratory system.
4rd semester:
Anatomy and physiology: gastrointestinal tract, endocrine system, metabolism and thermoregulation, integumentary system, blood and immune system, urinary system, circadian rhythm, reproductive system, pregnancy and birth.
LiteratureAnatomie: Martini, Timmons, Tallitsch, "Anatomie", Pearson; oder Schiebler, Korf, "Anatomie", Steinkopff / Springer; oder Spornitz, "Anatomie und Physiologie, Lehrbuch und Atlas für Pflege-und Gesundheitsfachberufe", Springer

Physiologie: Thews/Mutschler/Vaupel: Anatomie, Physiologie, Pathophysiologie des Menschen,
Wissenschaftliche Verlagsgesellschaft, Stuttgart

oder

Schmidt/Lang/Thews: Physiologie des Menschen, Springer-Verlag, Heidelberg
Prerequisites / NoticeDer Besuch der Anatomie und Physiologie I - Vorlesung ist Voraussetzung, da die Anatomie und Physiologie II - Vorlesung auf dem Wissen der im vorangegangenen Semester gelesenen Anatomie und Physiologie I - Vorlesung aufbaut.
529-0430-00LPractical Course Physical Chemistry (for Biol./Pharm.Sci.)O3 credits4PE. C. Meister
AbstractPractical introduction to important basic experimental methods in physical chemistry. Investigation of qualitative and quantitative relations between physico-chemical quantities of the systems under study.
ObjectiveThe students have to carry out selected experiments in physical chemistry using important measurement methods and devices.
The measured data have to be processed, mostly with the aid of computers, and considering error propagation and statistics.
Detailed laboratory reports have to be written to each experiment.
ContentBasic physical chemistry experiments covering chemical thermodynamics and kinetics, electrochemistry, viscosity and optical spectroscopy.
Computer simulation of physical-chemical phenomena.
Lecture notesErich Meister, Grundpraktikum Physikalische Chemie: Theorie und Experimente, 2. Auflage, vdf Hochschul-Verlag an der ETH, Zürich, 2012.
Supplementary material to experiments is available.
701-0245-00LIntroduction to Evolutionary BiologyO2 credits2VG. Velicer, S. Wielgoss
AbstractThis course introduces important questions about the evolutionary processes involved in the generation and maintenance of biological diversity across all domains of life and how evolutionary science investigates these questions.
ObjectiveThis course introduces important questions about the evolutionary processes involved in the generation and maintenance of biological diversity across all domains of life and how evolutionary science investigates these questions. The topics covered range from different forms of selection, phylogenetic analysis, population genetics, life history theory, the evolution of sex, social evolution to human evolution. These topics are important for the understanding of a number of evolutionary problems in the basic and applied sciences.
ContentTopics likely to be covered in this course include research methods in evolutionary biology, adaptation, evolution of sex, evolutionary transitions, human evolution, infectious disease evolution, life history evolution, macroevolution, mechanisms of evolution, phylogenetic analysis, population dynamics, population genetics, social evolution, speciation and types of selection.
LiteratureTextbook:
Evolutionary Analysis
Scott Freeman and Jon Herron
5th Edition, English.
Prerequisites / NoticeThe exam is based on lecture and textbook.
Biological Chemistry
NumberTitleTypeECTSHoursLecturers
551-1174-00LSystems BiologyW4 credits2V + 2UU. Sauer, K. M. Borgwardt, J. Stelling, N. Zamboni
AbstractThe 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 will obtain first experience with programming their own analyses/models for data analysis/interpretation.
ObjectiveWe will teach little if any novel biological knowledge or analysis methods, but focus on training the ability of use existing knowledge (for example from enzyme kinetics, regulatory mechanisms or analytical methods) to understand biological problems that arise when considering molecular elements in their context and to translate some of these problems into a form that can be solved by computational methods. Specific goals are:
- 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
ContentDuring 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 notesKein Skript
LiteratureThe 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
529-0222-00LOrganic Chemistry IIO3 credits2V + 1UJ. W. Bode, B. Morandi
AbstractThis course builds on the material learned in Organic Chemistry I or Organic Chemistry II for Biology/Pharmacy Students. Topics include advanced concepts and mechanisms of organic reactions and introductions to pericyclic and organometallic reactions. These topics are combined to the planning and execution of multiple step syntheses of complex molecules.
ObjectiveGoals of this course include the a deeper understanding of basic organic reactions and mechanism as well as advanced and catalytic transformations (for example, Mitsunobu reactions, Corey-Chaykovsky epoxidation, Stetter reactions, etc). Reactive intermediates including carbenes and nitrenes are covered, along with methods for their generation and use in complex molecule synthesis. Frontier molecular orbital theory (FMO) is introduced and used to rationalize pericyclic reactions including Diels Alder reactions, cycloadditions, and rearrangements (Cope, Claisen). The basic concepts and key reactions of catalytic organometallic chemistry, which are key methods in modern organic synthesis, and introduced, with an emphasis on their catalytic cycles and elementrary steps. All of these topics are combined in an overview of strategies for complex molecule synthesis, with specific examples from natural product derived molecules used as medicines.
ContentOxidation and reduction of organic compounds, redox netural reactions and rearrangments, advanced transformations of functional groups and reaction mechanismes, kinetic and thermodynamic control of organic reactions, carbenes and nitrenes, frontier molecular orbital theory (FMO), cycloadditions and pericyclic reactions, introduction to organometallic chemistry and catalytic cross couplings, introduction to peptide synthesis and protecting groups, retrosynthetic analysis of complex organic molecules, planning and execution of multi-step reaction.
Lecture notesThe lecture notes and additional documents including problem sets are available as PDF files online, without charge. Link: http://www.bode.ethz.ch/education.html
LiteratureClayden, Greeves, and Warren. Organic Chemistry, 2nd Edition. Oxford University Press, 2012.
529-0430-00LPractical Course Physical Chemistry (for Biol./Pharm.Sci.)O3 credits4PE. C. Meister
AbstractPractical introduction to important basic experimental methods in physical chemistry. Investigation of qualitative and quantitative relations between physico-chemical quantities of the systems under study.
ObjectiveThe students have to carry out selected experiments in physical chemistry using important measurement methods and devices.
The measured data have to be processed, mostly with the aid of computers, and considering error propagation and statistics.
Detailed laboratory reports have to be written to each experiment.
ContentBasic physical chemistry experiments covering chemical thermodynamics and kinetics, electrochemistry, viscosity and optical spectroscopy.
Computer simulation of physical-chemical phenomena.
Lecture notesErich Meister, Grundpraktikum Physikalische Chemie: Theorie und Experimente, 2. Auflage, vdf Hochschul-Verlag an der ETH, Zürich, 2012.
Supplementary material to experiments is available.
376-0152-00LAnatomy and Physiology II Information W5 credits4VM. Ristow, K. De Bock, M. Kopf, L. Slomianka, C. Spengler
AbstractBasic knowledge of the anatomy and physiology of the gastrointestinal tract, endocrine organs, urinary system and the reproductive system. Knowlewdge of the basic mechanisms of pathobiology. Study of all human tissues and selected organs by examining slides under the light microscope.
ObjectiveFoundations of human anatomy and physiology and basics of clinical pathophysiology
ContentShort overview of human anatomy, physiology and general pathology.
3rd semester:
Principles of histology and embryology. Anatomy and physiology: nervous system, muscle, sensory organs, circulatory system, respiratory system.
4rd semester:
Anatomy and physiology: gastrointestinal tract, endocrine system, metabolism and thermoregulation, integumentary system, blood and immune system, urinary system, circadian rhythm, reproductive system, pregnancy and birth.
LiteratureAnatomie: Martini, Timmons, Tallitsch, "Anatomie", Pearson; oder Schiebler, Korf, "Anatomie", Steinkopff / Springer; oder Spornitz, "Anatomie und Physiologie, Lehrbuch und Atlas für Pflege-und Gesundheitsfachberufe", Springer

Physiologie: Thews/Mutschler/Vaupel: Anatomie, Physiologie, Pathophysiologie des Menschen,
Wissenschaftliche Verlagsgesellschaft, Stuttgart

oder

Schmidt/Lang/Thews: Physiologie des Menschen, Springer-Verlag, Heidelberg
Prerequisites / NoticeDer Besuch der Anatomie und Physiologie I - Vorlesung ist Voraussetzung, da die Anatomie und Physiologie II - Vorlesung auf dem Wissen der im vorangegangenen Semester gelesenen Anatomie und Physiologie I - Vorlesung aufbaut.
3. Year, 6. Semester
Concept Courses
NumberTitleTypeECTSHoursLecturers
529-0732-00LProteins and LipidsW6 credits3GD. Hilvert
AbstractAn overview of the relationship between protein sequence, conformation and function.
ObjectiveOverview of the relationship between protein sequence, conformation and function.
ContentProteins, structures and properties, (bio)synthesis of polypeptides, protein folding and design, protein engineering, chemical modification of proteins, proteomics.
LiteratureGeneral Literature:
- T.E. Creighton: Proteins: Structures and Molecular Properties, 2nd Edition, H.W. Freeman and Company, New York, 1993.
- C. Branden, J. Tooze , Introduction to Protein Structure, Garland Publishing, New York, 1991.
- J. M. Berg, J. L. Tymoczko, L. Stryer: Biochemistry, 5th edition, H.W. Freeman and Company, New York, 2002.
- G.A. Petsko, D. Ringe: Protein Structure and Function, New Science Press Ltd., London, 2004.

Original Literature:
Citations from the original literature relevant to the individual lectures will be assigned weekly.
551-0324-00LSystems Biology Information W6 credits4VR. Aebersold, B. Christen, M. Claassen, U. Sauer
AbstractIntroduction 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.
Objective- obtain an overview of global analytical methods
- obtain an overview of computational methods in systems biology
- understand the concepts of systems biology
ContentOverview 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 notesno script
LiteratureThe 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
551-0320-00LCellular Biochemistry (Part II)W3 credits2VY. Barral, R. Kroschewski, A. E. Smith
AbstractThis course will focus on molecular mechanisms and concepts underlying cellular biochemistry, providing advanced insights into the structural and functional details of individual cell components, and the complex regulation of their interactions. Particular emphasis will be on the spatial and temporal integration of different molecules and signaling pathways into global cellular processes.
ObjectiveThe full-year course (551-0319-00 & 551-0320-00) focuses on the molecular mechanisms and concepts underlying the biochemistry of cellular physiology, investigating how these processes are integrated to carry out highly coordinated cellular functions. The molecular characterization of complex cellular functions requires a combination of approaches such as biochemistry, but also cell biology and genetics. This course is therefore the occasion to discuss these techniques and their integration in modern cellular biochemistry.
The students will be able to describe the structural and functional details of individual cell components, and the spatial and temporal regulation of their interactions. In particular, they will learn to explain how different molecules and signaling pathways can be integrated during complex and highly dynamic cellular processes such as intracellular transport, cytoskeletal rearrangements, cell motility, and cell division. In addition, they will be able to illustrate the relevance of particular signaling pathways for cellular pathologies such as cancer or during cellular infection.
ContentSpatial and temporal integration of different molecules and signaling pathways into global cellular processes, such as cell division, cell infection and cell motility. Emphasis is also put on the understanding of pathologies associated with defective cell physiology, such as cancer or during cellular infection.
LiteratureRecommended supplementary literature (review articles and selected primary literature) will be provided during the course.
Prerequisites / NoticeTo attend this course the students must have a solid basic knowledge in chemistry, biochemistry, cell biology and general biology. Biology students have in general already attended the first part of the "Cellular Biochemistry" concept course (551-0319-00). The course will be taught in English.
In addition, the course will be based on a blended-learning scenario, where frontal lectures will be complemented with carefully chosen web-based teaching elements that students access through the ETH Moodle platform.
551-0314-00LMicrobiology (Part II)W3 credits2VW.‑D. Hardt, L. Eberl, H.‑M. Fischer, J. Piel, J. Vorholt-Zambelli
AbstractAdvanced lecture class providing a broad overview on bacterial cell structure, genetics, metabolism, symbiosis and pathogenesis.
ObjectiveThis concept class will be based on common concepts and introduce to the enormous diversity among bacteria and archaea. It will cover the current research on bacterial cell structure, genetics, metabolism, symbiosis and pathogenesis.
ContentAdvanced class covering the state of the research in bacterial cell structure, genetics, metabolism, symbiosis and pathogenesis.
Lecture notesUpdated handouts will be provided during the class.
LiteratureCurrent literature references will be provided during the lectures.
Prerequisites / NoticeEnglish
551-0326-00LCell Biology Information W6 credits4VS. Werner, M. Bordoli, R. Henneberger, W. Kovacs, M. Schäfer, U. Suter, A. Wutz
AbstractThis Course introduces principle concepts, techniques, and experimental strategies used in modern Cell Biology. Major topics include: neuron-glia interactions in health and disease; mitochondrial dynamics; stem cell biology; growth factor action in development, tissue repair and disease; cell metabolism, in particular sensing and signaling mechanisms, cell organelles, and lipid metabolism.
Objective-To prepare the students for successful and efficient lab work by learning how to ask the right questions and to use the appropriate techniques in a research project.
-To convey knowledge about neuron-glia interactions in health and disease.
- To provide information on different types of stem cells and their function in health and disease
-To provide information on growth factor signaling in development, repair and disease and on the use of growth factors or their receptors as drug targets for major human diseases
-To convey knowledge on the mechanisms underlying repair of injured tissues
-To provide the students with an overview of mitochondrial dynamics.
-Providing an understanding of RNA processing reactions and their regulations.
-To provide a comprehensive understanding of metabolic sensing mechanisms occurring in different cell types and organelles in response to glucose, hormones, oxygen, nutrients as well as lipids, and to discuss downstream signaling pathways and cellular responses.
-To provide models explaining how disturbances in complex metabolic control networks and bioenergetics can lead to disease and to highlight latest experimental approaches to uncover the intricacies of metabolic control at the cellular and organismal level.
-Providing the background and context that foster cross-disciplinary scientific thinking.
551-0318-00LImmunology IIW3 credits2VA. Oxenius, M. Kopf, S. R. Leibundgut, E. Wetter Slack, further lecturers
AbstractIntroduction into the cellular and molecular basis of the immune system and immune responses against diverse pathogens, tumors, transplants, and self (autoimmunity)
ObjectiveThe lectures will provide a detailed understanding:
- how innate and adaptive immune responses interact at the cellular and molecular level.
- how the immune system recognizes and fights against pathogenic microorganisms including viruses, bacteria, and parasites.
- why lymphocytes tolerate self molecules.
- about function and dysfunction the intestinal immune system.
- immunopathology and inflammatory diseases.
ContentThe aim of lecture is to understand:
> How pathogens are recognized by the innate immune system
> Immune defense against various pathogens
> Immunology of the skin, lung and intestines
> Tumor immunology
> Migration and homing of immune cells
> tolerance and autoimmunity
> T cell memory
Lecture notesPresentations of the lecturers are available at the Moodle link
LiteratureRecommended: Kuby Immunology (Freeman)
376-0209-00LMolecular Disease MechanismsW6 credits4VC. Wolfrum, H. Gahlon, M. Kopf
AbstractIn this course the mechanisms of disease development will be studied. Main topics will be:

1. Influence of environmental factors with an emphasis on inflammation and the immune response.
2. Mechanisms underlying disease progression in metabolic disorders, integrating genetic and environmental factors.
3. Mechanisms underlying disease progression in cancer, integrating genetic and environment
ObjectiveTo understand the mechanisms governing disease development with a special emphasis on genetic and environmental associated components
Lecture notesAll information can be found at:

https://moodle-app2.let.ethz.ch/course/view.php?id=690

The enrollment key will be provided by email
551-0307-01LMolecular and Structural Biology II: From Gene to Protein
D-BIOL students are obliged to take part I and part II as a two-semester course.
W3 credits2VN. Ban, F. Allain, S. Jonas, M. Pilhofer
AbstractThis course will cover advanced topics in molecular biology and biochemistry with emphasis on the structure and function of cellular assemblies involved in expression and maintenance of genetic information. We will cover the architecture and the function of molecules involved in DNA replication, transcription, translation, nucleic acid packaging in viruses, RNA processing, and CRISPER/CAS system.
ObjectiveStudents will gain a deep understanding of large cellular assemblies and the structure-function relationships governing their function in fundamental cellular processes ranging from DNA replication, transcription and translation. The lectures throughout the course will be complemented by exercises and discussions of original research examples to provide students with a deeper understanding of the subjects and to encourage active student participation.
ContentAdvanced class covering the state of the research in structural molecular biology of basic cellular processes with emphasis on the function of large cellular assemblies.
Lecture notesUpdated handouts will be provided during the class.
LiteratureThe lecture will be based on the latest literature. Additional suggested
literature:
Branden, C., and J. Tooze, Introduction to Protein Structure, 2nd ed.
(1995). Garland, New York.
Block Courses
Registration for Block courses is mandatory. Please register under https://www.uzh.ch/zoolmed/ssl-dir/Blockkurse_UNIETH.php . Registration period: 17.12.2018 - 07.01.2019
Block Courses in 1st Quarter of the Semester
From 19.2.2019 13:00 - 13.3.2019 17:00
NumberTitleTypeECTSHoursLecturers
551-0360-00LApplied Plant Biotechnology Restricted registration - show details
Does not take place this semester.
Number of participants limited to 8.

The enrolment is done by the D-BIOL study administration.
W6 credits7GW. Gruissem
AbstractThe APB covers multidisciplinary aspects of green biotechnology. Students will acquire knowledge about transgenic crops in the world, processes to generate transgenic plants as well as strategies to engineer plants resistant to biotic and abiotic stresses. Development of new tools for plant biotechnology will be performed in the lab. Social aspects of green biotechnology will also be presented.
ObjectiveThe complete field of Plant Biotechnology shall be introduced in order to provide an overview over the diversity of this discipline, its connections with other disciplines, and its historical context. A major focus of the block course will be the potential of genetic modification as a tool for gene function in basic science as well as for agronomic and/or commercial application dealing with benefit and risk. Basic methods will be handled in practical experiments, lectures will provide the theoretical background including issues beyond the scientific scene like patent issues, ethical considerations, or legal regulation. The goal of this teaching unit is to educate interested students such that they overlook the discipline, are able to understand the basic methodical and intellectual approaches, understand and critically interpret the literature on this field and are able to further follow the development in this field after finishing their studies. Finally, the students should learn to develop own research projects and follow them including communication of their work to the public or the media.
ContentThe following theoretical topics will be presented:

- Plant tissue culture (N. benthamiana, cereals, cassava, cell cultures, somatic embryogenesis, regeneration)
- Methods for genetic transformation (Agrobacterium) and Molecular analysis of genetically modified (GM) plants (copy number, inheritance of transgenes etc)
- Selection systems (antibiotic and herbicide resistance, phosphor-mannose isomerase, marker-free systems, visible markers)
- Inducible promoters, tissue specific promoters
- Silencing and its application in plant biotechnology
- Biotechnological tools for crop improvement (the case of cassava and rice)
- Application potential (herbicide tolerance, pest and pathogen resistance, biofuel etc.)
- Public interest (ethical issues, patenting of GM-plants, GM food, public outreach).

Lectures will have a special focus on the contribution of biotechnology to the improvement of tropical crops such as cassava and rice. A visit to the greenhouse facilities is also planned to give the opportunity to discuss the different project performed at the ETH Plant Biotechnology Lab.

For the practical part of the blockcourse, students will perform their own research project. It will aim at the development of new promoters for green biotechnology. Students will clone the specific promoters from different plant species and subsequently produce transgenic plant cells using the methods presented during the course. Project to identify new plant resistance genes from genetically diverse set of rice lines will also be carried out as part of the practicals.
Lecture notesScripts will be distributed in the course for the practical parts and/or on Moodle platform.
LiteratureLiterature will be provided in the course
Prerequisites / NoticeLectures of APB are given in English.
551-0342-00LMetabolomics Restricted registration - show details
Number of participants limited to 15.

The enrolment is done by the D-BIOL study administration.
W6 credits7GN. Zamboni, U. Sauer
AbstractThe 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.
ObjectivePerforming 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.
ContentBasics 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.
551-0339-00LMolecular Mechanisms of Cell Dynamics Restricted registration - show details
Number of participants limited to 13.

The enrolment is done by the D-BIOL study administration.
W6 credits7GE. Dultz, Y. Barral, U. Kutay, M. Peter, K. Weis
AbstractApplication of current strategies to study complex and highly regulated cellular processes during cell division and growth.
ObjectiveThe students learn to evaluate and to apply the current strategies to study complex and highly regulated cellular processes during cell division and growth.
ContentDuring this Block-Course, the students will learn to (1) describe the main regulators and the mechanics of cell division and growth, (2) perform standard lab techniques and quantitate dynamic cellular processes during cell division and growth, (3) evaluate and compare experimental strategies and model systems, (4) independently search and critically evaluate scientific literature on a specific problem and present it in a seminar, and (5) formulate scientific concepts (preparation and presentation of a poster).
Students will work in small groups in individual labs on one research project (8 full days of practical work; every group of students will stay in the same lab during the entire course). The projects are close to the actual research carried out in the participating research groups, but with a clear connection to the subject of the course.
LiteratureDocumentation and recommended literature (review articles and selected primary literature) will be provided during the course.
Prerequisites / NoticeThis course will be taught in english.
551-1516-00LNeuron-Glia Interactions and Myelination in Health and Disease Restricted registration - show details
Number of participants limited to 15.

The enrolment is done by the D-BIOL study administration.
W6 credits7GU. Suter
AbstractThe course provides general basic insights and new perspectives in the development, plasticity and repair of the nervous system. The focus is on molecular, cellular and transgenic approaches.
ObjectiveThrough a combination of practical work with lectures, discussions, project preparations and presentations, the students learns basic principles of neural plasticity and repair in health and disease. The course is closely linked to ongoing research projects in the lab to provide the participants with direct insights into current experimental approaches and strategies.
551-0914-00LScience and Society and Research Ethics Restricted registration - show details
Does not take place this semester.
Number of participants limited to 25
The block course will only take place with a minimum of 10 participants.

The enrolment is done by the D-BIOL study administration.
W6 credits7GE. Hafen
AbstractThis introductory course addresses the need to improve the dialogue between researchers and society and to deepen the understanding of ethical questions related to research. It provides an opportunity to recognize and discuss the social and ethical aspects of science.
ObjectiveThe learning objectives of the course are to:
-begin to explore the roles and responsibilities of the modern scientist;
-help you to gain insights as a scientist into the social and ethical aspects of scientific research;
-provide opportunities for you to debate on the social and ethical aspects of science, either from the point of a scientist or as a citizen.
ContentScientists are increasingly demanded to discuss and communicate social and ethical issues that arise from their work. Understanding these issues is also part of developing science and technology responsibly. However, the formal education system often requires scientists to focus on core science subjects at the expense of learning about the social and ethical implications of their work. In this course, we provide opportunities for practicing scientists to recognize social and ethical aspects of their work, and to develop knowledge and skills to discuss them with confidence.
LiteratureThe course is not taught by a particular book, but recommended literature (review articles and selected primary literature) will be provided during the course. Members of the course will use twitter @DSS131 and #DSS15
551-0118-00LPlant Cell Biology Restricted registration - show details
Number of participants limited to 12.

The enrolment is done by the D-BIOL study administration.

The course «551-0118-00L Plant Cell Biology» must be booked as «BIO 281 Plant Cell Biology» in the block course tool.
W6 credits7GC. Sánchez-Rodríguez, J. Vermeer
AbstractThe course is a collaboration of the Plant Cell Biology groups of ETHZ and UZH. The students will learn key concepts related with the remarkable ability of plants to adapt to challenges provided by their environment (both biotic, such as pathogens, and abiotic, like nutrient deficiencies). A multidisciplinary approach including molecular genetics, cell biology, biochemistry and bioinformatics tool
ObjectiveIn this course, students will get cell biological and molecular genetics insights into the developmental plasticity of plants to adapt to their environmental conditions using the model plant Arabidopsis thaliana. With this aim, they will actively participate in ongoing research projects tutored by doctoral students.
ContentStudents will be engaged in research projects aimed to understand the specialized mechanisms evolved by the plants to grow under challenging environments. In a lecture series, the theoretical background for the projects and their interrelationship is provided.
Students will design and perform experiments, evaluate experimental results, present their projects, and discuss recent publications to understand the relevance of their work in the context of the current state of plant development and stress response.
Lecture notesNo script
LiteratureThe recommended literature and list of individual reading assignments will be provided during the course
Prerequisites / NoticeAll general lectures will be held at ETH Centrum (LFW building). Students will be divided into small groups to carry out experiments at ETH (Central; LFW) and UZH (Botanical Garden)
Block Courses in 2nd Quarter of the Semester
From 14.3.2019 8:00 - 4.4.2019 17:00
NumberTitleTypeECTSHoursLecturers
376-1346-00LStudy of Epigenetic Mechanisms in Mental Health Restricted registration - show details
Number of participants limited to 8

The enrolment is done by the D-BIOL study administration.
W6 credits7GI. Mansuy
AbstractThis block course is focused on the study of the epigenetic mechanisms that regulate complex brain functions and behavior. It provides an overview of molecular methods used in experimental mice or in human samples to investigate epigenetic processes that control genome activity and gene expression, and are associated with cognitive functions and behavioral responses.
ObjectiveThe purpose is to learn the principles of major methods in epigenetics that allow examine genome activity at the level of DNA, RNA or protein, in the context of complex brain functions.
Content4 independent projects for 3 students each covering various aspects of epigenetic mechanisms. It will focus on state-of-the-art techniques to measure or manipulate gene expression and gene activity in the adult brain or in cell culture, and analyse the effects in vitro or in vivo using omics analyses, molecular and biochemical tools and behavioral testing.
Lecture notesProvided at the beginning of the practical.
551-0352-00LProtein Analysis by Mass Spectrometry Restricted registration - show details
Number of participants limited to 12.

The enrolment is done by the D-BIOL study administration.
W6 credits7GL. Gillet, B. Collins, P. Picotti
AbstractProtein Analysis by Mass Spectrometry
The following topics will be covered: basics of biological mass spectrometry, including instrumentation, data collection and data analysis; applications to protein identification and characterization; sample preparation methods; proteomics strategies; and quantitative analysis.
ObjectiveHow to prepare a protein sample for MS analysis (trypsin digestion, C18 clean-up)
Principles of data acquisition LC-MS (QTOF and/or Ion Trap instruments)
Perform qualitative proteomic analysis (protein identification with Mascot and/or Sequest Softwares)
Perform quantitative proteomic analysis (label-free and labeled analyses)
Analyze/interpret the data to find up/down regulated proteins
551-0434-00LNMR Spectroscopy in Biology Restricted registration - show details
Number of participants limited to 6.

The enrolment is done by the D-BIOL study administration.
W6 credits7GF. Allain, A. D. Gossert, K. Wüthrich
AbstractIn this block course, students actively participate in ongoing research projects in the research groups of Profs. Allain, Wüthrich and Dr. Gossert. The students will be tutored in their experimental work by experienced postdoc students. In addition, the course includes specific lectures that provide the theoretical background for the experimental work, as well as exercises and literature work.
ObjectiveThe course provides first "hands on" insight into applications of NMR spectroscopy in biological sciences. The course should enable the students to understand the potential and limitations of NMR applied to biological problems.
ContentThe topics include studies of proteins, RNA and protein-RNA interactions,

Participation in one of the following projects will be possible:
- NMR of RNA
- NMR of several protein-RNA complexes (hnRNPF, nPTB, SR proteins)
- NMR studies of protein-ligand interactions
- dynamics of protein-RNA complexes
- Segmental isotopic labeling to study multidomain proteins
- NMR Methods Development
Lecture notesNo script
LiteratureLists of individual reading assignments will be handed out.
529-0810-01LLaboratory Course Organic Chemistry II (for D-BIOL) Restricted registration - show details
Number of participants limited to 12.

Please contact Prof. C. Thilgen (thilgen@org.chem.ethz.ch) as early as possible, end of Autumn Semester. You will get a confirmation if you are accepted.

The enrolment is done by the D-BIOL study administration.

The de-facto language of instruction depends on the tutor.
W12 credits4PC. Thilgen
AbstractAn organic-synthetic sub-project of the current research of a group from the Laboratory of Organic Chemistry is carried out under the guidance of doctoral students.
ObjectiveLearn to plan and carry out challenging multistep syntheses making use of modern methods; reach a deeper understanding of organic reactions through experimental work; develop an organic-synthetic research project; take accurate notes, write a publication style report, and present the obtained results in a seminar.
ContentAn organic-synthetic sub-project of the current research of a group from the Laboratory of Organic Chemistry is carried out under the guidance of doctoral students.
Lecture notesNo course notes.
LiteratureNo set textbooks. Literature will be indicated or provided by the supervising TAs.
Prerequisites / NoticeCourse prerequisites: Accomplished laboratory course Organic Chemistry I (529-0229-00) and passed session exam Organic Chemistry I (529-0221-00 or 529-1011-00) / Organic Chemistry II (529-0222-00 or 529-1012-00). The number of participants is limited to 12.
551-1147-00LBioactive Natural Products from Bacteria Restricted registration - show details
Number of participants limited to 7.

The enrolment is done by the D-BIOL study administration.
W6 credits7GJ. Piel
AbstractLab course. In small groups projects of relevance to current research questions in the field of bacterial natural product biosynthesis are addressed.
ObjectiveIntroduction to relevant subjects of the secondary metabolism of bacteria. Training in practical work in a research laboratory. Scientific writing in form of a research report.
ContentResearch project on bacteria that produce bioactive natural products (e.g., Streptomycetes, Cyanobacteria, uncultivated bacteria). The techniques used will depend on the project, e.g. PCR, cloning, natural product analysis, precursor feeding studies, enzyme expression and analysis.
Lecture notesnone.
LiteratureWill be provided for each of the projects at the beginning of the course.
551-1554-00LMultigene Expression in Mammalian Cells Restricted registration - show details
Number of participants limited to 5.

The enrolment is done by the D-BIOL study administration.
W6 credits7GP. Berger, G. Schertler
AbstractGenetic engineering of mammalian cells with multiple expression cassettes is an essential need in contemporary cell biology. It is useful for protein expression for structural studies, the reprogramming of somatic cells, or for the expression of several fluorescently-tagged sensors. In this course, we use MultiLabel (Kriz et al., Nat. Commun., 2010) to create multigene expression plasmids.
ObjectiveStudents will learn to design and clone multigene expression constructs for mammalian cells. The functionality of the constructs will be tested by immunofluorescence microscopy or Western blotting.
ContentWe will clone fluorescently-tagged markers for subcellular compartments, assemble them to a multigene expression construct and transfect them into mammalian cells. These markers of subcellular compartments will be used to study the trafficking of activated receptors (e.g. serotonin receptor). Pictures will be taken on our microscopes and then we will quantify colocalization.
Lecture notesnone
551-0436-00LCryo-electron Microscopic Studies of Ribosomal Complexes with Biomedically Important Viral mRNAs Restricted registration - show details
Number of participants limited to 15.

The enrolment is done by the D-BIOL study administration.
W6 credits7GN. Ban, D. Böhringer, M. A. Leibundgut
AbstractSome viral mRNAs, such as from Hepatitis C virus, hijack cellular translational machinery by binding directly to the ribosome and circumventing the need for cellular initiation factors. They accomplish this through structured elements within the mRNAs called internal ribosome entry sites (IRESs). Participants of this course will visualize ribosomes in complex with viral IRESs at high resolution.
ObjectiveThe goal of the course is to acquire the most important techniques and methods for the purification and structural characterisation of macromolecular complexes by transmission electron microscopy. The emphasis of the course is on the special practical requirements for the application of these techniques on macromolecular structures in the MDa range.
ContentProtein synthesis is a very energy intensive process that can consume over half the total metabolism of a cell. In eukaryotes, translation is therefore tightly regulated at the stage of initiation. Regulatory processes are much more complex at this step than in prokaryotes and a large number of RNA modification processes and translation initiation factors are required to ensure faithful initiation, elongation and termination of translation. Viral messenger RNAs are often produced by their own machinery, however, and need to be incorporated into the host translation machinery without the usual processing and therefore many viruses have developed strategies to circumvent the need for initiation factors. They accomplish this through highly structured elements within their RNA called internal ribosome entry sites (IRESs) that are able to initiate translation without the normal signals. Some viral IRESs, such as the IRESs from polio-virus or HIV, require most of the normal eIFs and even additional proteins. Others, such as the hepatitis C virus IRES, are able to bind directly to the ribosome and need only a few of the normal initiation factors. Within the Ban lab, we have studied, and continue to investigate, medically relevant viral IRESs. The course will involve producing, and attempting to determine the structures of, IRESs that have yet to have had their ribosome-bound structures resolved.

A variety of purification techniques, including preparative gel electrophoresis and ultracentrifugation, will be used during the purification of macromolecular complexes. Purified assemblies will be then investigated functionally. Students will then characterise their samples structurally through transmission electron cryo-microscopy (cryo-EM), including sample preparation, microscopy, data evaluation and the calculation of densities. Finally, students will learn how to build and refine molecular models into parts of the calculated cryo-EM density. The participants will be working on a closed project related to current research within the laboratory and throughout the course the practical work will be accompanied by brief theoretical introductions. The principal aim of the course is to strengthen the skills required to independently conduct meaningful biophysical and biochemical experiments and to provide an early introduction into the structural characterisation of cellular macromolecular assemblies.
Lecture notesA script will be distributed at the beginning of the course that will cover the experiments to be performed, provide references to the relevant literature and suggest points for further consideration for interested students.
LiteratureLiterature
A basic overview is provided within the references below. Further reading and citations shall be detailed in the course script.
- A. Fersht, Structure and mechanism in protein science, Freeman, 1999 (Chapters 1 and 6).
- M. van Heel et al., Single-particle electron cryo microscopy: towards atomic resolution, Quart. Rev. Biophys. (33), 307-369 (2000).
Prerequisites / NoticeThe course will be held in English. Students should have either completed courses:
551-0307-00L Biomolecular Structure and Mechanism I: Protein Structure and Function
551-0307-01L Biomolecular Structure and Mechanism II: Large Cellular Machines
or equivalent courses covering the structure and function of biological macromolecules.
551-1712-00LSocial Entrepreneurship and Biological Approaches to Sustainable Development Restricted registration - show details
Number of participants limited to 30
The block course will only take place with a minimum of 10 participants.

The enrolment is done by the D-BIOL study administration.
W6 credits7GE. Hafen, D. Boschung, J. Bouwsma, A. Lashansky, P. C. Mankeekar
AbstractThe course gives students insights into the United Nations’ seventeen Sustainable Development Goals (SDGs) and how scientific thinking and the knowledge about biological mechanisms can help to address challenges associated with the SDGs. A special focus will be on company models whose goal is not only to maximize financial gains for investors but on social responsibility and societal impact.
ObjectiveThe students possess a general knowledge about the basic concepts in biology. They are accustomed with the principles of experimental work (setting up and testing of hypotheses). In the lectures during the first two years they learnt about the limits of our biological understanding today and what the open questions with respect to human biology are.
Prerequisites / NoticeStudent teams will develop their own business idea and pitch it to a group of entrepreneurs and investors.
Block Courses in 3rd Quarter of the Semester
From 5.4.2019 8:00 - 8.5.2019 17:00
NumberTitleTypeECTSHoursLecturers
551-0362-00LAnalysis of Signaling Networks by Mass Spectrometry Restricted registration - show details
Number of participants limited to 10.

The enrolment is done by the D-BIOL study administration.
W6 credits7GM. Gstaiger, M. Claassen, B. Wollscheid
AbstractThis course provides the theoretical and practical basis for the biochemical and computational analysis of signaling networks using quantitative mass spectrometry and advanced statistical methods.
ObjectiveIn this course we will introduce basic and emerging techniques to study dynamic signalling networks using state of the art quantitative mass spectrometry techniques. This will involve the systematic characterization of signaling networks by affinity purification and phospho-peptide enrichment combined with quantitative mass spectrometry. We will also introduce and apply computational tools for statistical analysis, data visualization and network inference to build new hypothesis on the basis of the obtained data.
Prerequisites / NoticeThis course requires a basic knowledge in mass spectrometry based proteomics and experience in computational data processing using R or MatLab. Ideally this course should be combined with course 551-0352-00L "Protein Analysis by Mass Spectrometry".
376-1332-00LCellular Neurobiology Restricted registration - show details
Does not take place this semester.
Number of participants limited to 10

The enrolment is done by the D-BIOL study administration.
W6 credits7GG. Schratt
AbstractIntroduction into neurobiological research techniques and hands-on work in actual research projects. The goal is to encourage independent scientific thinking and to translate theoretical knowledge into practical experiments. The course includes reading of original articles and presentation of the work done.
ObjectiveHands-on work in actual research projects to encourage independent scientific thinking and translation of theoretical knowledge into practical experiments. Further goals are reading and interpretation of original literature and presentation of ones work.
ContentIntroduction into neurobiological research techniques and collaboration in actual research projects. The goal is to encourage independent scientific thinking and to translate theoretical knowledge into practical experiments. The experimental focus will be on cell culture work (primary cell cultures and cell lines), cell biological, molecular biology and biochemical approaches. The course includes reading of original articles and presentation of the work done.
Lecture notesOriginal articles will be handed out and discussed during the course.
LiteratureOriginal articles will be handed out and discussed during the course.
529-0810-01LLaboratory Course Organic Chemistry II (for D-BIOL) Restricted registration - show details
Number of participants limited to 12.

Please contact Prof. C. Thilgen (thilgen@org.chem.ethz.ch) as early as possible, end of Autumn Semester. You will get a confirmation if you are accepted.

The enrolment is done by the D-BIOL study administration.

The de-facto language of instruction depends on the tutor.
W12 credits4PC. Thilgen
AbstractAn organic-synthetic sub-project of the current research of a group from the Laboratory of Organic Chemistry is carried out under the guidance of doctoral students.
ObjectiveLearn to plan and carry out challenging multistep syntheses making use of modern methods; reach a deeper understanding of organic reactions through experimental work; develop an organic-synthetic research project; take accurate notes, write a publication style report, and present the obtained results in a seminar.
ContentAn organic-synthetic sub-project of the current research of a group from the Laboratory of Organic Chemistry is carried out under the guidance of doctoral students.
Lecture notesNo course notes.
LiteratureNo set textbooks. Literature will be indicated or provided by the supervising TAs.
Prerequisites / NoticeCourse prerequisites: Accomplished laboratory course Organic Chemistry I (529-0229-00) and passed session exam Organic Chemistry I (529-0221-00 or 529-1011-00) / Organic Chemistry II (529-0222-00 or 529-1012-00). The number of participants is limited to 12.
551-0344-00LPlant-Microbe Interactions Restricted registration - show details
Number of participants limited to 10.

The enrolment is done by the D-BIOL study administration.
W6 credits7GH.‑M. Fischer, J. Vorholt-Zambelli
AbstractLab course. In small groups projects of relevance to current research questions in the field of plant-microbe interactions are addressed.
ObjectiveIntroduction to relevant subjects of the biology of plant-associated microorganisms. Training in practical work in a research laboratory. Exposure to current research topics in the field of plant-microbe interactions. Scientific writing in form of a research report.
ContentResearch project on plant-associated microorganisms (i.e. Bradyrhizobium, Methylobacterium, Sphingomonas). The techniques used will depend on the project, e.g. PCR, cloning, community analysis, plant inoculation experiments, phenotypic analysis, plant transformation, (fluorescence) microscopy, monitoring gene expression
Lecture notesnone
LiteratureWill be provided for each of the projects at the beginning of the course.
551-1556-00LMacromolecular Structure Determination Using Modern Methods Restricted registration - show details
Number of participants limited to 11 in the 3rd semester quarter of the spring semester

Number of participants limited to 12 in the 4th semester quarter of the spring semester

The enrolment is done by the D-BIOL study administration.
W6 credits7GK. Locher, G. Schertler
AbstractThis course will expose the students to two prominent techniques for high-resolution structural characterization of biological macromolecules. The students will have the opportunity to get hands-on experience in either cryo-electron microscopy (ETH) or X-ray crystallography (PSI).
ObjectiveThe goal of this course is to introduce the students to the principles of high-resolution structure determination. Students will conduct hands-on experiments and use computational techniques for data processing.
ContentAt the ETH the students will prepare and vitrify a protein and then image it on a cryo-TEM. Next, the students will process the data and build an atomic model into the EM map.

At the PSI the students will purify and crystallize a membrane protein, collect X-ray diffraction data using synchrotron X-ray source or with cryo-EM, analyze and build an atomic model into a density map. They will refine this model and interpret and illustrate the determined structure. The course work is trying to present insights in the use of structural information. The course also includes a demonstration of the Synchrotron capabilities at the Paul Scherrer Institute (SLS).
Prerequisites / NoticeThe students will be split into two groups for the practical part of the work: One group will work at ETH Hönggerberg, the other at the Paul Scherrer Institute (PSI) at Villigen. All students will spend one full day at the PSI for a tour of the facilities, including a visit of the synchrotron beam lines of the Swiss Light Source SLS.

The students joining the ETH Hönggerberg group will spend the majority of the time on data processing and are therefore expected to have some basic knowledge of bash terminal commands. Basic physics, optics and linear algebra knowledge is also helpful. By the end of the course, the students will be expected to understand concepts such as the difference between Fourier and real space, image formation, contrast transfer, fast Fourier transfer and Fourier shell correlation.
551-1312-00LRNA-Biology II Restricted registration - show details
Number of participants limited to 16.

The enrolment is done by the D-BIOL study administration.
W6 credits7GS. Jonas, F. Allain, C. Beyer, U. Kutay, O. Voinnet, K. Weis
AbstractIntroduction to the diversity of current RNA-research at all levels from structural biology to systems biology using mainly model systems like S. cerevisiae (yeast), mammalian cells.
ObjectiveThe students will obtain an overview about the diversity of current RNA-research. They will learn to design experiments and use techniques necessary to analyze different aspects of RNA biology. Through lectures and literature seminars, they will learn about the burning questions of RNA research and discuss approaches to address these questions experimentally. In practical lab projects the students will work in one of the participating laboratories. Finally, they will learn how to present and discuss their data in an appropriate manner. Student assessment is a graded semester performance based on individual performance in the laboratory, the written exam and the project presentation.
Lecture notesRelevant material from the lectures will be made available during the course via the corresponding Moodle page.
LiteratureDocumentation and recommended literature will be provided at the beginning and during the course.
551-1300-00LCause and Consequences of Unstable Genomes Restricted registration - show details
Number of participants limited to 15.

The enrolment is done by the D-BIOL study administration.
W6 credits7GJ. Fernandes de Matos, Y. Barral, C. Beyer, P. Cejka, R. Kroschewski, G. Schwank
AbstractThe course will introduce students to key concepts and laboratory research within the broad field of "Genome stability".
ObjectiveStudents will learn to design, apply and evaluate current research strategies in a wide range of modern research areas encompassing the broad field of "Genome stability".
ContentThe course will consist of lectures, practical laboratory work in small groups, informal progress report sessions, and preparation and presentation of a poster. Lectures will be presented mainly at the start of the course to expose students to key concepts and techniques in the field. Students will team into small groups and work in one laboratory for the rest of the course. Students will meet regularly for informal "progress report" discussions of their projects. Student performance will be assessed based on the quality of their practical work, a written exam on frontal lecture material, and a poster presentation of their practical work.
LiteratureDocumentation and recommended literature in the form of review articles and selected primary literature will be provided during the course.
Prerequisites / NoticeThis course will be taught in English.
551-1302-00LSynthetic Genomics Restricted registration - show details
Number of participants limited to 6.

The enrolment is done by the D-BIOL study administration.
W6 credits7GB. Christen, M. Christen
AbstractLab course on experimental and computational approaches in synthetic microbiology. Participants work in small groups to address current questions in the field of synthetic genomics.
ObjectiveThe course covers high-throughput biology techniques and design approaches to engineer large-scale synthetic DNA constructs ranging form pathways to entire bacterial genomes. Training in experimental and computational work in a research laboratory.
ContentResearch project in synthetic biology. Learn basics of DNA part definition, sequence design, de novo DNA synthesis and assembly strategies used for synthetic genomics. Discuss recent advances and current limitations in the field.

Soft skills to be trained: scientific project planning, team-work, presentation and reporting.
Block Courses in 4th Quarter of the Semester
From 9.5.2019 8:00 - 31.5.2019 17:00
NumberTitleTypeECTSHoursLecturers
551-0386-00LMicrobial Ecology Restricted registration - show details
Number of participants limited to 15.

The enrolment is done by the D-BIOL study administration.
W6 credits7GM. Lever
AbstractMicroorganisms can be found in most terrestrial and aquatic habitats where they catalyze a broad variety of biological and biogeochemical processes. Throughout the course „Microbial Ecology“ the basic concepts of microbial structures and functions in natural ecosystems are discussed. Excursions, lab experiments and literature studies help to illustrate selected topics.
ObjectiveIn this course, students shall familiarize themselves with the basic and essential understanding of what enables microbial life in its natural habitat. Students will understand what essential factors are needed to support microbial life in its natural habitat. Course participants will also be able to identify and determine the microbial structures and functions in aquatic and terrestrial systems, both qualitatively and quantitatively.
ContentDer Kurs umfasst Vorlesungen, experimentelle Arbeiten, Exkursionen und Literaturstudien. Teile der Vorlesung “Umweltmikrobiologie“ (Dozenten M. Lever & M. Schroth) werden in den Kurs inkorporiert. Im Rahmen von experimentellen Arbeiten werden die Studierenden lernen, traditionelle wie auch molekulare mikrobiologische Methoden gezielt einzusetzen. Darüber hinaus werden die Studierenden lernen, mikrobiell ökologische Fragestellungen mit Hilfe von biogeochemischen Methoden anzugehen. Ausgewählte Facetten der mikrobiellen Ökologie (z.B. Quellen und Senken von Methan, Interaktion von Mikroorganismen mit mineralischen Oberflächen, mikrobielle Energie- und Nährstoffkreisläufe) werden mit Hilfe von Exkursionen und Literaturstudien vertieft.
Lecture notesSchriftliche Unterlagen werden im Verlaufe des Kurses abgegeben.
LiteratureBrock Biology of Microorganisms, Prentice Hall, 2003
551-0376-00LExperimental Plant Ecology Restricted registration - show details
Number of participants limited to 20
A minimum of 4 participants are required in order for the block course to take place.

The enrolment is done by the D-BIOL study administration.
W6 credits7GD. Ramseier, H. G. M. Olde Venterink
AbstractThe course gives an introduction to experimental plant ecology. A wide range of experiments close to applications (especially in conservation biology), to the influence of global change on ecosystems to fundamental research about coexistence of plants in ecosystems will be covered with lectures, excursions, demonstrations and own experiments.
Objective- to become familiar with various experimental approaches and instruments for plant ecological research, incl. advantages and disadvantages
- to gain practical skills by carrying out and evaluating ecological plant experiments
ContentExperiments in plant ecology are gaining importance for estimating the effects of global change and invasive species on ecosystems and their functions and ecosystem services. There are also numerous restoration projects where one would like to get away form the trial - error principle and anticipate the success of restoration measures on the basis of experiments.
In this course, principles of experimental plant ecology will be given in lectures, demonstrations, excursions, study of literature and with experiments realized by participants. In a theoretical part, advantages and disadvantages of various experimental approaches, methods and instruments will be discussed. The practical part will comprise experiments at various levels. Groups of students, under guidance, will develop experiments. This includes asking clear questions, search of literature, setting up and maintenance of the experiments, measurements, statistical analysis and interpretation of the results, and present a talk. Example of potential experiments are: a) influence of functional groups on cooling effects of green roofs; b) influence of mobility of nutrients on plant competition and coexistence; c) does P scarcity limits further dispersal of Amorpha fruticosa, a invasive species at Tagliamento, the last almost natural big river of the alps in Northern Italy? How do seeds optimize their germination behaviour? How can germination be improved for restoration projects or for greening of flat roofs?
On one of the excursions we will visit the restoration project Seebachtalseen (www.stiftungseebachtal.ch), where one of the lecturers is involved in restoring wet meadow communities. The destination of an other excursion will be an experiment on a green roof examining the influence of various substrates and their thicknesses on the development of the vegetation.
Lecture notesdocuments will be distributed during the course
Prerequisites / NoticeExperiments in plant ecology, as they will be set up for that course, typically last for 6 to 8 weeks. Thus, the experiments will be set up before the block by the students and then be harvested and analysed during the block (last quarter of the term). We will give a one hour introduction at the beginning of the term (time according to agreement), where participants can choose topics and form groups. The experiments will then be set up. The time used before the block can be compensated.
376-1398-00LCellular and Behavioural Neuroscience Restricted registration - show details
Number of participants limited to 10.

The enrolment is done by the D-BIOL study administration.
W6 credits7GG. Schratt, J. Bohacek
AbstractIntroduction into our research and hands-on work in actual research projects. The goal is to encourage independent scientific thinking and to translate theoretical knowledge into practical experiments. The course also includes reading of original articles and presentation of the work done.
ObjectiveHands-on work in actual research projects to encourage independent scientific thinking and translation of theoretical knowledge into practical experiments. Further goals are reading and interpretation of original literature and presentation of ones work.
ContentIntroduction into our research and collaboration in actual research projects. The goal is to encourage independent scientific thinking and to translate theoretical knowledge into practical experiments. The paradigms include in vivo experiments with rats and/or mice. Next to behavioral studies also histological and anatomical analyses are done. The course includes reading of original articles and presentation of the work done.
Lecture notesOriginal articles will be handed out and discussed during the course.
LiteratureOriginal articles will be handed out and discussed during the course.
551-1556-00LMacromolecular Structure Determination Using Modern Methods Restricted registration - show details
Number of participants limited to 11 in the 3rd semester quarter of the spring semester

Number of participants limited to 12 in the 4th semester quarter of the spring semester

The enrolment is done by the D-BIOL study administration.
W6 credits7GK. Locher, G. Schertler
AbstractThis course will expose the students to two prominent techniques for high-resolution structural characterization of biological macromolecules. The students will have the opportunity to get hands-on experience in either cryo-electron microscopy (ETH) or X-ray crystallography (PSI).
ObjectiveThe goal of this course is to introduce the students to the principles of high-resolution structure determination. Students will conduct hands-on experiments and use computational techniques for data processing.
ContentAt the ETH the students will prepare and vitrify a protein and then image it on a cryo-TEM. Next, the students will process the data and build an atomic model into the EM map.

At the PSI the students will purify and crystallize a membrane protein, collect X-ray diffraction data using synchrotron X-ray source or with cryo-EM, analyze and build an atomic model into a density map. They will refine this model and interpret and illustrate the determined structure. The course work is trying to present insights in the use of structural information. The course also includes a demonstration of the Synchrotron capabilities at the Paul Scherrer Institute (SLS).
Prerequisites / NoticeThe students will be split into two groups for the practical part of the work: One group will work at ETH Hönggerberg, the other at the Paul Scherrer Institute (PSI) at Villigen. All students will spend one full day at the PSI for a tour of the facilities, including a visit of the synchrotron beam lines of the Swiss Light Source SLS.

The students joining the ETH Hönggerberg group will spend the majority of the time on data processing and are therefore expected to have some basic knowledge of bash terminal commands. Basic physics, optics and linear algebra knowledge is also helpful. By the end of the course, the students will be expected to understand concepts such as the difference between Fourier and real space, image formation, contrast transfer, fast Fourier transfer and Fourier shell correlation.
551-0334-00LMolecular Defense Mechanisms of Fungi Restricted registration - show details
Number of participants limited to 6.

The enrolment is done by the D-BIOL study administration.
W6 credits7GM. Künzler
AbstractThe course offers an introduction into the molecular biology of fungi by participation in a current research project on Molecular Defense Mechanisms of Fungi. The performed experiments, in conjunction with accompanying seminars should enable the students to answer questions regarding central aspects of innate defense mechanisms and the life style of multicellular fungi.
ObjectiveThe course should enable the students to answer questions regarding central aspects of innate defense mechanisms and the life style of multicellular fungi, and their experimental accessibility.
ContentExperiments include the isolation, identification and characterization of defense effector molecules from multicellular fungi. Methods include molecular genetics, biochemistry, mass spectrometry and biotoxicity assays towards different model organisms including fungi, bacteria, insects and nematodes. Experiments are supported by seminars giving an overview over Fungal Defense Mechanisms and Fungal Lifestyle.
Literaturehttp://www.micro.biol.ethz.ch/research/aebi/kuenzler/publications
Prerequisites / NoticeThe "Leistungskontrolle" is composed of:
-Oral presentation of results
-Short oral exam (20') at the end of the course
-Written report
-Performance in the laboratory
551-0916-00LLearning and Teaching Biology Information Restricted registration - show details
Number of participants limited to 20
The block course will only take place with a minimum of 10 participants.

The enrolment is done by the D-BIOL study administration.
W6 credits7GE. Hafen, K. Köhler, further lecturers
AbstractThis course represents an introduction to recent research into student learning on the conceptual foundations of modern biology, together with pedagogical methods associated with effective instruction and its valuation. Students will be involved in active research into conceptual and practical issues involved in biology education and methods to discover student preconceptions.
ObjectiveProvides an overview on student's learning and shows ways to make the classroom experience more engaging and effective for students. Students will learn to produce a research-based paper on a project they work on during the course.
LiteratureThe course is not taught by a particular book, but recommended literature (review articles and selected primary literature) will be provided during the course.

See the introductory video to the course here: http://youtu.be/GFJuNncSsdE
Block Courses during Semester Break
NumberTitleTypeECTSHoursLecturers
551-0396-01LImmunology I Restricted registration - show details
Number of participants limited to 30.

Prerequisites: Attendance of the concept courses Immunology I (551-0317-00L) and Immunology II (551-0318-00L)

The enrolment is done by the D-BIOL study administration.
W6 credits7GA. Oxenius, B. Becher, M. Groettrup, M. Kopf, B. Ludewig, C. Münz, R. Spörri, M. van den Broek
AbstractThis block course teaches a wide selection of practical immunological techniques and offers advanced lectures in selected topics in immunology.
ObjectiveThe aim of this block course is the acquaintance with a wide spectrum of immunological techniques involving practical experimental work following analysis and interpretation of the experimental data. Along the practical work, advanced lectures in selected topics in immunology, based on the knowledge from the immunology concept course, will be offered. Furthermore, students will have the opportunity to read, interpret and present current papers followed scientific discussions.
ContentThe aim of this block course is the acquaintance with a wide spectrum of immunological techniques involving practical experimental work following analysis and interpretation of the experimental data. Along the practical work, advanced lectures in selected topics in immunology, based on the knowledge from the immunology concept course, will be offered. Furthermore, students will have the opportunity to read, interpret and present current papers followed scientific discussions.
Lecture notesA script for the course will be available online (the link will be provided in the immunology concept lecture, 551-0318-00L).
Prerequisites / NoticeRequirement for the registration for this block course is the attendance of the immunology concept courses 551-0317-00L and 551-0318-00L.
Evaluation of achievements is done on an individual basis by each participating lecturer.
701-2314-00LPlant Diversity
Maximum participants: 12 (D-BIOL)
Only students of the Biology BSc are admitted! The enrolment is done by the D-BIOL study administration.

The excursion fee has to be payed until March 18th, 2019. Unpaid places will be given to students on the waiting list until April 1st, 2019.
W6 credits12PR. Berndt, A. Guggisberg
AbstractThe practical focuses on the flora and vegetation of selected areas of the Alps and covers the altitudinal range between the foothill and the alpine zone. During two excursions to Visp and Kandersteg the students will deepen their knowledge of plant species and learn to recognize important vegetation units and their ecological characteristics. An introduction will be provided in Zurich.
ObjectiveKnowledge of the most important vegetation types, their flora and ecological conditions in the northern Alps (Berner Oberland) and in an intramontane xeric valley (Wallis). Consolidation of taxonomic and plant morphological knowledge. Experience in plant determination using scientific determination keys. Basics of scientific collecting and pressing of plants (part colline/montane).
ContentLectures/course: Consolidation of plant families and morphology. Climatic, geological and biogeographic divisions of the Alps. Introduction to plant nomenclature.
Excursions: Identification of vascular plant species. Characteristic vegetation types of xeric intramontane valleys and the Bernese Alps and their ecological conditions. Interaction between plants and their environment: Examples from pollination, reproduction and dispersal strategies; adaptations of plant species to their environment.
Literature-Baltisberger M., Nyffeler R. & Widmer A. 2013: Systematische Botanik. 4., vollständig überarbeitete und erweiterte Aufl. v/d/f Hochschulverlag AG an der ETH Zürich.
-Hess H.E., Landolt E., Hirzel R. & Baltisberger M. 2015: Bestimmungsschlüssel zur Flora der Schweiz. 7., aktualisierte und überarbeitete Aufl., Birkhäuser Verlag, Basel/Boston/Berlin.
Prerequisites / NoticeWe only admit students to the practical who have successfully completed the introductory lectures of Prof. Leuchtmann and the associated exercises and excursions. In addition, it is expected that the participants know how to use a determination key (Bestimmungsschlüssel zur Flora der Schweiz) and understand the necessary descriptive terminology.

Students from other universities are requested to contact the lecturers.

Program:
Part I - colline/montane (Valais):
3.6. Introduction (Zürich, ETH Centre, CHN D-46)
11.-15.6. Excursion to Valais (Visp)
18.6. Exam (Zürich, ETH Centre, CHN building, room to be announced)

Part II - subalpine/alpine:
18.6. Introduction for subsequent week (Zurich, ETH Centre, CHN building)
24.6.-22.6. Excursion northern Alps (Kandersteg): upper montane to alpine zone
1.7. Exam and visit of Herbarium (Zurich, Botanical Garden, University of Zurich).

The excursion will take place in the mountains under any weather conditions. The participants should be able to cope with rough and steep terrain and should bring appropriate equipment. Sturdy mountain boots are mandatory!

Course fees:
The ETH Departments of Biology and Environmental Systems Sciences financially support this excursion. The costs amount CHF 500.- per student and cover transport, accommodation and full board.
551-0438-00LProtein Folding, Assembly and Degradation Restricted registration - show details
Number of participants limited to 6.

The enrolment is done by the D-BIOL study administration.
W6 credits7GR. Glockshuber, E. Weber-Ban
AbstractStudents will carry out defined research projects related to the current research topics of the groups of Prof. Glockshuber and Prof. Weber-Ban. The topics include mechanistic studies on the assembly of adhesive pili from pathogenic bacteria, disulfide bond formation in the bacterial periplasm, ATP-dependent chaperone-protease complexes and formation of amyloid deposits in Alzheimer's disese.
ObjectiveThe course should enable the students to understand and apply biophysical methods, in particular kinetic and spectroscopic methods, to unravel the mechanism of complex reactions of biological macromolecules and assemblies in a quantitative manner.
ContentThe students will be tutored in their experimental work by doctoral or postdoctoral students from the Glockshuber or Weber-Ban group. In addition, the course includes specific lectures that provide the theoretical background for the experimental work, as well as excercises on the numeric evaluation of biophysical data, and literature work.

Participation in one of the following projects will be possible:

Projects of the Glockshuber group:
- Purification, biophysical characterization and structure determiation of enzymes required for disulfide bond formation in the periplasm of Gram-negative bacteria.
- Mechanistic studies on the assembly of type 1 pili from pathogenic Escherichia coli strains. In vitro reconstitution of pilus assembly from all purified components. Characterization of folding, stability and assembly behaviour of individual pilus subunits.
- Identification of intermediates in the aggregation of the human Abeta peptide

Experimental work on these projects involves
- Molecular cloning, recombinant protein production in E. coli and protein purification
- Protein crystallization
- Thermodynamic and kinetic characterization of conformational changes in proteins and protein-ligand interactions by fluorescence and circular dischoism spectroscopy
- Analysis of rapid reactions by stopped-flow fluorescence
- Negative-stain electron microscopy
- Light scattering



Projects of the Weber-Ban group:

- Generation and purification of site-directed variants of the E. coli ClpA/P protease and chaperone-proteasome complexes from other organisms, their biophysical characterization, including rapid kinetics by stopped-flow methods, ATPase activity measurtements, negative-stain electron microscopy and light scattering
Prerequisites / NoticeAttendance of the concept course "Biomolecular Structure and Mechanism I" (551-0307-00L) in the autumn semester is highly recommended for acquiring the theoretical background to this block course.
GESS Science in Perspective
» see Science in Perspective: Language Courses ETH/UZH
» see Science in Perspective: Type A: Enhancement of Reflection Capability
» Recommended Science in Perspective (Type B) for D-BIOL