Suchergebnis: Katalogdaten im Herbstsemester 2017

Biotechnologie Master Information
Master-Studium (Studienreglement 2017)
Students need to acquire a total of 14 ECTS in lab courses.
All listed lab courses are mandatory.
636-0201-00LLab Course: Methods in Cell Analysis and Laboratory Automation Belegung eingeschränkt - Details anzeigen
Only for Biotechnology MSc, Programme Regulations 2017.
O2 KP6PT. Horn
KurzbeschreibungThe course Methods in Cell Analysis and Laboratory Automation introduces students to high-end cell analysis and sample preparation methods including image analysis. Students will be taught theoretical aspects and skills in Flow Cytometry, Light Microscopy, Image Analysis, and the use of Laboratory Automation.
Lernziel-to understand the technical and physical principles of light microscopes and flow cytometers
-to have hands-on experience in the use of these technologies to analyze/image real samples
-to be able to run a basic analysis of the data and images obtained with flow cytometers and microscopes
-to get introduced to liquid handling (pipetting) robotics and learn how to implement a basic workflow
InhaltThe practical course will have five units at 2 days each (total 10 days):
1. Flow Cytometry:
a. Introduction to Flow Cytometry
b. Practical demonstration on flow cytometry analyzers and flow cytometry cell sorters
c. Flow cytometry sample preparation
d. Learn how to use flow cytometry equipment to analyze and sort fluorescence-labeled cells
2. Light microscopy
a. Learn how to build a microscope and understand the underlying physical principles
b. Learn how to use a modern automated wide field fluorescence microscope
c. Use this microscope to automatically acquire images of a cell culture assay to analyze the dose-dependent effect of a drug treatment
3. Image Analysis
a. Introduction to the fundamentals of image analysis
b. Learn the basics of the image analysis software Fiji/ImageJ
c. Use Fiji/ImageJ to analyze the images acquired during the microscopy exercise
4. Laboratory Automation
a. Introduction to the basics of automated liquid handling/ lab robotics
b. See examples on using lab automation for plasmid library generation and cell cultivation
c. Learn how to program and execute a basic pipetting workflow including liquid handling and labware transfers on Tecan and Hamilton robotic systems
5. Presentations
a. Each student will be assigned to an individual topic of the course and will have to prepare a presentation on it.
b. Presentations and discussion in form of a Colloquium
SkriptYou will find further information on the practical course and the equipment at:
LiteraturMicroscopy: Murphy and Davidson, Fundamentals of Light Microscopy and Electronic Imaging, John Wiley & Sons, 2012
Flow Cytometry: Shapiro, Practical Flow Cytometry, John Wiley & Sons, 2005
Image analysis: R. C. Gonzalez, R. E. Woods, Digital Image Processing (3rd Edition), Prentice Hall
Laboratory Automation: Design and construction of a first-generation high-throughput integrated robotic molecular biology platform for bioenergy applications (2011) J. Lab. Autom., 16(4), 292-307
Voraussetzungen / BesonderesThe following knowledge is required for the course:
-basic laboratory methods
-basic physics of optics (properties of light, refraction, lenses, fluorescence)
-basic biology of cells (cell anatomy and physiology)
636-0202-00LLab Course: Next-Generation Sequencing Belegung eingeschränkt - Details anzeigen
Only for Biotechnology MSc, Programme Regulations 2017.
O2 KP5PC. Beisel, R. Paro, S. Reddy
KurzbeschreibungThe Lab Course will take place Monday/Tuesday 9-17h, 10 days in total, start of this lab course is on Monday, September 25 2017.
LernzielStudents shall obtain a basic understanding in NGS and its application in transcription profiling including theoretical considerations when starting an RNA-seq experiment and the practical hands-on work of library preparation and usage of bioinformatics tools for data analysis.
InhaltIntroduction to NGS technologies and applications. Design of an RNA-seq transcription profiling experiment. Specific treatment of cells (+/- signal-induction) and RNA extraction. Handling and quality control of RNA samples. Sequencing library preparation starting with total RNA. Quality control and quantification of the libraries. Setup of an NGS run and sequencing of the prepared RNA-seq libraries using the NextSeq 500 system. Analysis of the generated sequence data: sequence data QC, criteria for run performance and quality of data; pre-processing of the raw data; mapping sequence reads to a reference sequence; quantification of transcript abundance and differential gene expression.
SkriptMaterial will be provided during the course
LiteraturSara Goodwin, John D. McPherson & W. Richard McCombie. Coming of age: ten years of next-generation sequencing technologies. Nature Reviews Genetics 17, 333-351 (2016)

Zhong Wang, Mark Gerstein & Michael Snyder. RNA-Seq: a revolutionary tool for transcriptomics. Nature Reviews Genetics 10, 57-63 (January 2009)

Fatih Ozsolak & Patrice M. Milos. RNA sequencing: advances, challenges and opportunities. Nature Reviews Genetics 12, 87-98 (February 2011)

Ana Conesa, Pedro Madrigal, Sonia Tarazona et al. A survey of best practices for RNA-seq data analysis. Genome Biology 2016 17:13.
636-0203-00LLab Course: Microsystems and Microfluidics in Biology Belegung eingeschränkt - Details anzeigen
Only for Biotechnology MSc, Programme Regulations 2017.
O2 KP5PP. S. Dittrich, A. Hierlemann
KurzbeschreibungThis practical course is an introduction to microsystems technology and microfluidics for the life sciences. It includes basic concepts of microsystem design, fabrication, and assembly into an experimental setup. Biological applications include a variety of measurements of cellular and tissue signals and subsequent analysis.
LernzielThe students are introduced to the basic principles of microsystems technology. They get acquainted with practical scientific work and learn the entire workflow of (a) understanding the theoretical concept, (b) planning the experiment, (c) engineering of the needed device, (d) execution of the experiment and data acquisition, (e) data evaluation and analysis, and (f) reporting and discussion of the results.
InhaltThe practical course will consist of a set of 4-8 experiments.
SkriptNotes and guidelines will be provided at the beginning of the course.
Literatur- S.M. Sze, "Semiconductor Devices, Physics and Technology", 2nd edition, Wiley, 2002
- W. Menz, J. Mohr, O. Paul, "Microsystem Technology", Wiley-VCH, 2001
- G. T. A. Kovacs, "Micromachined Transducers Sourcebook", McGraw-Hill, 1998
- M. J. Madou, "Fundamentals of Microfabrication", 2nd ed., CRC Press, 2002
- N.-T. Nguyen and S. Wereley, "Fundamentals and Applications of Microfluidics", Artech House, ISBN 1-580-53343-4
- O. Geschke et al., "Microsystem Engineering for Chemistry and the Life Sciences", Wiley-VCH, ISBN 3-527-30733-8
Voraussetzungen / BesonderesThe practical course will consist of a set of 4-8 experiments. For each experiment, the student will be required to
- understand the theoretical concept behind the experiment
- plan the experiment
- engineer the devices
- execute the experiments and acquire data
- evaluate and analyze the data
- report and discuss the results
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