From 2 November 2020, the autumn semester 2020 will take place online. Exceptions: Courses that can only be carried out with on-site presence.
Please note the information provided by the lecturers via e-mail.

Shinichi Sunagawa: Catalogue data in Autumn Semester 2018

Name Prof. Dr. Shinichi Sunagawa
FieldMicrobiome Research
Institut für Mikrobiologie
ETH Zürich, HCI F 423
Vladimir-Prelog-Weg 1-5/10
8093 Zürich
Telephone+41 44 633 61 55
RelationshipAssociate Professor

551-1109-00LSeminars in Microbiology0 credits2KM. Aebi, H.‑M. Fischer, W.‑D. Hardt, M. Künzler, J. Piel, S. Sunagawa, J. Vorholt-Zambelli
AbstractSeminars by invited speakers covering selected microbiology themes.
ObjectiveDiscussion of selected microbiology themes presented by invited speakers.
551-1119-00LMicrobial Community Genomics Restricted registration - show details
Number of participants limited to 6.

Prerequisite: Basic knowledge in [R] (e.g. indroductory course) and/or UNIX is required. Participants should bring their own laptop computer.

The enrolment is done by the D-BIOL study administration.
6 credits7GS. Sunagawa
AbstractIntroduction to current research methods in the analysis of microbial communities using Next Generation Sequencing approaches - metagenomics. Practical experience of work in a computational laboratory and an introduction to scientific programming.
ObjectiveGain skills in data analysis and presentation for oral and written reports. Lectures introducing state-of-the-art in respective research areas and community microbiology, which is the target of ongoing research. Start to assess current literature.
Prerequisites / NoticeBasic knowledge in [R] (e.g. indroductory course) and/or UNIX is required. Participants should bring their own laptop computer.
551-1299-00LIntroduction to Bioinformatics Restricted registration - show details
Number of participants limited to 50.
6 credits4GS. Sunagawa, M. Gstaiger, A. Kahles, G. Rätsch, B. Snijder, E. Vayena, C. von Mering, N. Zamboni
AbstractThis course introduces principle concepts, the state-of-the-art and methods used in the field of Bioinformatics. Major topics include: genomics, metagenomics, network bioinformatics, and imaging. Lectures are accompanied by practical exercises that involve the use of common bioinformatic methods and basic programming.
ObjectiveThe course will provide students with the theoretical background in the area of genomics, metagenomics, network bioinformatics and imaging. In addition, students will acquire basic skills in applying modern methods that are used in these sub-disciplines of Bioinformatics. Students will thus be able to access and analyze DNA sequence information, construct and interpret networks that emerge though interactions of e.g. genes/proteins, and extract information based on computer-assisted image data analysis. Students will also be able to assess the ethical implications of access to and generation of new and large amounts of information as they relate to the identifiability of a person and the ownership of data.
Case studies to learn about applying ethical principles in human genomics research

Genetic variant calling
Analyze and critical evaluate genome wide association studies

Reconstruction of microbial genomes
Microbial community compositional analysis
Quantitative metagenomics

Network bioinformatics
Inference of molecular networks
Use of networks for interpretation of (gen)omics data

High throughput single cell imaging
Image segmentation
Automatic analysis of drug effects on single cell suspension (chemotyping)
Prerequisites / NoticeBringing your own laptop is a prerequisite for taking this course.