Dates: 14th-18th June 2021 (online lectures and hands-on) + one week project work
Location: Digital
Lecturers: Anagha Joshi, Kim Brugger, Alexander Lundervold, Sean Banks, Adriaan Ludl, Dimitrios Kleftogiannis
Credits: 5 ECTS
Registration: HERE Please note that the lectures will be open for all. Please indicate in the registration form if you like to follow only the lectures or if you also like to join the practical sessions. The practical sessions have limited spaces.
Course description:
This course will cover the use of genetic, epigenetic and transcriptomic data towards precision medicine. The course is split in two parts. The first part will be about one weeklong and has an aim to get the students familiar with starting from basic concepts to hands-on sessions using genomics data for precision medicine. This will cover class-room style teaching of key medical/biological concepts (e.g. gene regulation, complex/rare/somatic diseases, linkage disequilibrium etc.), genomics data (standard genotype, methylation and transcriptomic platforms) and guest lectures. We will further cover specific analyses including GWAS analysis, patient stratification, polygenic risk scores.
The second part of the course will consist of project work. The students will be free to define the project in the field of precision medicine, suited for their interest and according to their background including previous training. The students will then work independently on the project and submit the data analysis as a document (PDF) including research question, method and results.
Course program:
Monday (14th June 2021)
09:00-10:00 Welcome and introduction
10:00-12:00 Teaching and training of concept of the day (Variant Calling)
13:00-15:00 Hands-on session
15:00-16:00 Summary and Discussion
Tuesday (15th June 2021)
09:00-10:00 Stian Knappskog, professor, UiB
10:00-12:00 Teaching and training of concept of the day (Variant Interpretation)
13:00-15:00 Hands-on session
15:00-16:00 Summary and Discussion
Wednesday (16th June 2021)
09:00-10:00 Alexander Lundervold (Deep learning in computational biology and medicine)
10:00-12:00 Teaching and training of concept of the day (Deep Learning)
13:00-15:00 Hands-on session
15:00-16:00 Summary and Discussion
Thursday (17th June 2021)
09:00-10:00 Stefan Johansson, Professor, UiB
10:00-12:00 Teaching and training of concept of the day (MR and GWAS analysis)
13:00-15:00 Hands-on session
15:00-16:00 Discus Summary and Discussion
Friday (18th June 2021)
09:00-10:00 Tom Michoel, Professor, UiB
10:00-11:00 Teaching and training of concept of the day (Causal Inference)
11:00-14:00 Lunch break + hands-on
14:00-15:00 Diagnostics lecture – Kim
15:00-16:00 Summary and assignment
Learning outcome:
To obtain a general overview and understanding of the use for genomics data for precision medicine. To acquire the basic understanding of Variant calling and interpretation, GWAS analyses, polygenic risk score, health registries, disease stratification strategies towards precision medicine including data processing, analyses, interpretation of results, and presentation of results.
Prerequisites:
Basic understanding of bioinformatics. Previous experience with programming (any programming language) and some –omics data will be an advantage.
Teaching mode:
The first week of the course will run mostly in zoom. The current covid situation will limit hands-on assistance, but we will nevertheless have hands-on sessions working with real data. We will also organize smaller discussion groups throughout the course.