BIN420 Bioinformatics for Functional Meta-Omics
Showing course contents for the educational year 2022 - 2023 .
Course responsible: Phillip Byron Pope
Teachers: Arturo Vera Ponce De Leon, Ianina Altshuler, Live Heldal Hagen, Francesco Delogu, Benoit Josef Kunath, Magnus Øverlie Arntzen, Torgeir Rhodén Hvidsten
ECTS credits: 5
Faculty: Faculty of Chemistry, Biotechnology and Food Science
Teaching language: EN
Limits of class size:
Teaching exam periods:
Course frequency: every other year, next time Fall 2023
First time: Study year 2017-2018
Microbial communities are renowned for the influences they exert in nature as well as industrial applications. They encompass an extraordinary level of species complexity that is invaluable to the overall function of the community. However, our understanding is severely restricted due to the inherent species complexity and the fact that the majority of microbes that exist in nature cannot be cultivated. This course will introduce, explore and assess the vast array of sequencing technology and bioinformatic methods that are available to address these core issues. The course will include an array of contrasting tools to decrypt microbial communities, including those that assess community structure (metagenomics, predictive genome-reconstruction) and function (metatranscriptomics, metaproteomics
- Be able to design experiments and select appropriate methods and/or software
- Be able to explain the microbial population structure within a microbial community
- Be able to perform and assess assembly and taxonomic binning methods as well as interpret output quality
- Be able to combine the output from different omics methods to interpret the predicted function of uncultured microorganisms within a microbial community
- Be able to explain the shortcomings about these types of analyses
Intensive one week course and one project assignment with written report. Each course day will consist of:two, one hour lecturesa supervised computer lab (five hours).
Will be specified at the beginning of the course.
Master in bioinformatics, or related topics. Must know UNIX at a user-level and familiarity with a programming language (preferably Python and/or R) is expected. Basic knowledge in microbiology is also required.
Familiarity with a programming language (preferably Python and/or R) is expected. Basic knowledge in microbiology is also required.
There will be one project assignment where the students will present their findings in a written assignment (counts 100%).
Lectures: 10 hours
Computer labs: 25 hours
Individual study: 90 hours
Studnets need to sign up at StudentWeb and also fill out a registration form (to NORBIS research school): https://forms.gle/EKBFmAxUrf6KUNG58
Type of course:
2 lectures per day (1 hour each)
1 computer labs per day (5 hours)
The reports will be approved by an external examiner.
Examination details: Assignment: Passed / Not Passed