Teaching 2015-2016

• What if I have additional questions?
• Consult Kristel Van Steen (kristel.vansteen@ulg.ac.be) before or after class or by e-mail. In order for the mail not to get lost, please mention "genetic epidemiology" in the subject title
• Course schedule / Location
• When does the course take place? (updated ...)
• Where does the course take place? Check with the program secretarial office


• Scoring
• Partitioning of the final score (will be updated after class 1)

• Course notes:
• Units of genetic information
• Relevant questions in genetic epidemiology
• Course workshop papers:
• Life is complicated
• Background information:
• Supplement 1: Genetics revisited
• Supplement 2: The new epidemiologist
• Supplement 3: Series of Lancet Papers serving as background information
• All project assignments for this course:
• GWAs
• Adding complexity to GWAs
• Preparing for the exam:
• Guiding questions to prepare oral exam

• Course notes:
• Population association studies
• Course workshop papers:
• How to READ a GWA study?
• Background information:
• Supplement 4: Designing small-scale genetic association studies
• Supplement 5: Designing genome-wide association studies
• Supplement 6: GWAs - the statistical viewpoint

• Course notes:
• See last class - continued
• In case you want to do it yourself ...
• SNPassoc - Juan R. González 1, et al. Bioinformatics, 2007 23(5):654-655. Also have a look at the SNPassoc vignette
• Downloading instructions R and Bioconductor: Follow this link
• General information on using R:
• Part 1: R manuals
• Part 2: Basic Commands !!!
• Part 3: An introduction to R
• Part 4: Advanced
• Part 5: A few illustrative examples in R
• Plink - developped by the M.I.T., only available for linux platform (http://pngu.mgh.harvard.edu/~purcell/plink/). Practical guidelines paper (single-locus genetic models)
• GenABEL - Aulchenko Y.S., Ripke S., Isaacs A., van Duijn C.M. Bioinformatics. 2007,23(10):1294-6. See also the GenABEL website
• FBAT try-outs:
• SNPassoc / FBAT examples (R code included)
• FBAT software
• FBAT tour
• FBAT manual
• Background information:
• Supplement 7: GWAs - the biomedical informatics viewpoint
• Supplement 8: Study designs and methods post-GWAs
• Supplement 9: Family-based Genetic association studies
• Supplement 10: FBATs on CNVs

• For details, follow instructions in class and check out this link
• Background information:
• Supplement 11: Multi-locus models of genetic risk
• Supplement 12: Epistasis - what it does and does not mean and how to detect it
• Supplement 13: Assessing the function of genetic variants

• Presentations will be posted here
• Boiling the ocean?
• Reflections on "Tnteractions Training School"
• Adding extra levels of complexity - Exam assignment
• Class series closing