Course: Toxicogenomics
Aim of the course
In
this course, an introduction will be provided on genomics technologies, i.e.
gene expression profiling by microarray technologies, focussing on its
application in toxicology.
Content of the course
During
this course, participants will be familiarized with the theoretical and
practical background of toxicogenomics. Through lectures in the mornings,
knowledge will be provided about the basic principles of gene expression
profiling by DNA microarrays, its technologies, the main approaches for
statistical analyses and visualisation of microarray data, and its application
in toxicology. In the afternoon, practical experience with the main data
analyses approaches and applications will be provided by computer trainings and
a discussion group meeting.
Examination
At
the end of the week (Friday afternoon), the participants will give an oral
presentation on theoretical assignments, which will subsequently be discussed.
List of subjects
Basic
principles of genomics
- Methods
for gene expression profiling (one and two-colour arrays)
- Image
analysis, quality control and data pre-processing
- Data
analysis: statistical approaches and visualisations
- Data
mining to understand biology
- Other
technologies: proteomics and metabolomics
Applied
toxicogenomics
- Unravelling
toxic mechanisms
- Biomarkers
for toxic effects
- Predictive
toxicology
- Regulatory
aspects
Practical
trainings
- Design
your own microarray experiment
- Image
analysis of two-dye arrays (feature extraction, quality control and diagnosis)
- Data
analysis to identify differentially
expressed genes and to classify toxicants by gene expression
profiles (including clustering approaches and visualisations)
- Identification
of affected pathways and processes
List of organisers
Dr.
J.H.M. van Delft (UM), Dr. R. Stierum (TNO), Dr. M. Luijten (RIVM) and Dr. H.
Vrieling (LUMC)
Duration: 1 week
ECTS credits: 1.5
Period: 28/02-04/03, 2011
Fee: € 1,000.-
(PhD students may apply for the reduced rate of € 250.=)
Location: