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The following courses were organized and taught by the URPP Evolution bioinformaticians and / or members of the URPP Evolution:
Biology is constantly making use of new technologies that allow the acquisition of genomic and expression data (i.e. genomes, transcriptomes, methylomes). The goal of the tutorials is to teach students the skills to process and analyze their own sequencing data, as well as getting updates on the latest technologies and current genomic tools.
Examples of previous tutorials:
Concepts in evolutionary biology are often used ambiguously, partly because the same terms may have different usage in other fields in biology. The course is designed for graduate students with interdisciplinary projects encompassing evolutionary biology and other disciplines, and provides lectures and simple calculation exercises in population and quantitative genetics.
BIO 395 in Course Catalogue UZH
When: FS 2015, FS 2016, FS 2017, FS 2018, FS 2019, HS 2020, HS 2021, FS 2023, FS 2024
Instructors: Andreas Wagner, Barbara Tschirren, Erik Postma, Barbara König, Lukas Keller, Marcelo Sanchez, Wolf Blanckenhorn, Michael Krützen, Frédéric Guillaume,Kentaro Shimizu, Anne Roulin,Stefan Lüpold, Anna Lindholm, Simon Aeschbacher, Fabrizio Menardo, and others
All scientists have to write. Some love it, some hate it… This course provides tools and food for thought to enhance your writing and to overcome difficulties in the writing process. We will address the following topics:
• Publishing in Evolutionary Biology: how to write and communicate in the reviewing process
• Writing concise and attractive abstracts: how to structure and summarize complex topics
• Addressing different types of audience
• Find and keep motivation for writing projects; tools to improve focus
The course will provide a cheerful setting to work on these topics, by means of exercises, guided group work, input talks, discussions and individual feedback.
When: HS 2016, FS 2018, HS 2019, HS 2021, HS 2022, FS 2024
Practical computing skills are becoming essential in modern biology for data processing and analysis. The goal is to introduce the students to the Linux operating system and command-line tools taking a hands-on approach. Students will learn to write simple bash scripts.
This is a preparatory 1-day course for the courses BIO 610 and BIO 634.
When: FS 2017, FS 2018, FS 2019, Hs 2020, FS 2021, HS 2022, HS 2023, HS 2024
Instructors: Heidi Tschanz-Lischer, Stefan Wyder, Carla Bello, Gregor Rot, Deepak Tanwar
Handling of the huge data produced by next generation sequencers (NGS) requires us experimental knowledge and computational skills. The aim of this course is to familiarize the participants with experimental methods and data analysis about NGS. Topics will include: fundamental analysis of the sequence data, UNIX tools, and RNA-seq analysis. Fundamentals of data analysis and machine learning are also introduced.
BIO 610 in Course Catalogue UZH
When: FS 2013, FS 2015, FS 2016, FS 2017, FS 2018, FS 2019, HS 2020, FS 2021, HS 2022, HS 2023, HS 2024
Instructors: Kentaro Shimizu, Masaomi Hatakeyama, Jun Sese, Rie Shimizu Inatsugi, Heidi Tschanz-Lischer,Carla Bello, Gregor Rot,Deepak Tanwar, and others
Genetics studies have been extensively used in the past decades to elucidate human history and understand present patterns of diversity. The aim of this course is to review the major insights into human genetic history, in the context of our extensive cultural and ecological diversity. Topics will include: history of genetic studies, principles of population genetics, methods to detect selectionss, major findings concerning human genetic history, and relationships between genetic and cultural diversity.
When: HS 2019, HS 2020, HS 2022
Instructors: Mark Stoneking (MPI for Evolutionary Anthropology, Leipzig), Chiara Barbieri, Kentaro Shimizu
The goal is to introduce the students into data processing and analysis used in high-throughput sequencing (HTS). Based on the course BIO 610 "Next-Generation Sequencing for Model and Non-Model Species" it will extend knowledge of HTS analysis and skills in computing taking a hands- on approach.
When: FS 2015, FS 2016, FS 2017, HS 2018, FS 2019, HS 2020, FS 2021, FS 2023, HS 2024
Instructors: Heidi Tschanz-Lischer, Stefan Wyder, Masaomi Hatakeyama, Kentaro Shimizu,
Carla Bello, Gregor Rot, Deepak Tanwar
In this course, we will discuss one of the main tools for identifying genes that underlie natural phenotypic variation: genome-wide association studies (GWAS).
At the beginning of the course, we will provide an introduction to GWAS and a brief introduction to the computer languages used such as python, R and Perl. Then, we will introduce the principles of genetic mapping of target genes and the genetic and statistical background on which GWAS are based. The course has a strong practical component, and students will gain experience analyzing real data on the computer. At the end of the course, students will be able to interpret GWAS results and carry out their own analyses with their own data. We will also discuss basic concepts (and challenges) in population genetics and genomics.
When: HS 2013, HS 2015, HS 2018, HS 2020, FS 2023, FS 2024
Instructors: Nuno Pires, Arthur Korte, Timothy Paape, Ueli Grossniklaus, Kentaro Shimizu,Matthew Horton, Ümit Seren,Thomas Wicker
The URPP Evolution teaching efforts aimed at allowing PhD students to become researchers with a comprehensive understanding of the fields of evolutionary biology, genomics, bioinformatics, population genetics, and ecology.
