Version 5 (modified by rick, 7 years ago) (diff)


BBMRI omics Hands-on Course

date: March 31, 2017
Location: SURFsara, Utrecht
BBMRI url:


10:00-10:30 Introduction to available omics data within Description of RNA-seq, 450k methylation, metabolomics, imputed genotypes, phenotypes and technical covariates. Data location and access. (Rick Jansen)

10.30-11.15: Introduction to R package BIOSRutils. How to use BIOSRutils for filtering and QC, and finally run EWAS and TWAS (Maarten van Iterson)

11.15-12.15: Practicum (Maarten van Iterson)

12.15-13.15: Lunch (demo: using online atlases (Jan-Bert van Klinken))

13.15-13.45: Joost Verlouw: QTL lookup of GWAS hits. Take the SNP hits from a recent GWAS, extract corresponding BIOS genotype data, run association with full Methylation, Expression and Metabolomics data sets.

13.45-14.45: Practicum (Joost Verlouw)

14.45-15.15- Tea break

15:15-15:45: Introduction to the Brainshake 1H-NMR metabolomics platform (Marian Beekman)

15:45-16.30: Practicum. Analyzing Metabolomics data (Koen Dekker)

16:30-17:00: Allele specific expression (Niek de Klein & Freerk van Dijk) 17:00-17:45: Practicum (Niek de Klein & Freerk van Dijk))

18:00 Drinks

Practicum guidelines and exercises

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