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Courses in Practical DNA Microarray Analysis 2004

June 14 - 17 in Berlin

Datasets and additional packages used in the practical sessions can be found in the data directory, links to the tutorial slides and practical exercises in the table below.

Course schedule
 Monday, June 14
09.00-10.30 First analysis steps Wolfgang Huber
11.00-12.30 Differential gene expression Anja von Heydebreck
13.30-14.30 First steps in R Florian Markowetz
14.45-17.00 Exercises: Exploring cDNA data Wolfgang Huber
 Tuesday, June 15
09.00-10.30 Exploratory data analysis Jörg Rahnenführer
10.30-11.30 Resampling and the bootstrap Axel Benner
11.30-12.00 Screening by ROC curve analysis Axel Benner
13.30-14.30 Quality Control Wolfgang Huber
14.45-17.00 Exercises: 2x2 factorial design Wolfgang Huber
 Wednesday, June 16
09.00-10.30 Molecular Diagnosis Rainer Spang
10.30-11.30 Classification by Support Vector Machines Florian Markowetz
11.30-12.30 Model Assessment and Selection Axel Benner
13.30-17.00 Exercises: classification, model selection Florian Markowetz
Axel Benner
 Thursday, June 17
09.00-11.00 Annotation Benedikt Brors
11.00-12.30 Design of microarray experiments Ulrich Mansmann
13.30-17.00 Exercises: Experimental Design Ulrich Mansmann

How to find us

We meet at the Max-Planck-Institute for Molecular Genetics, Ihnestr 73, 14195 Berlin-Dahlem, main building (Turm 2) third floor, big seminar room, on Mon June 14 at 9 am. The MPI-MG is next to the underground station Thielplatz (U1). Click here for detailed visitor informations.

Bring your own data

You are encouraged to bring some of your own data to the course (e.g. genepix files or CEL/CDF). We will use this during the exercises. If you expect to have own data only later in the year, it may in fact be advantageous also to register for one of the later courses in Berlin or Heidelberg.

Background Knowledge

Ideally, you are interested in mathematical and statistical problems and are familiar with at least one programming language. This course focusses on the practical side of gene expression data analysis. However, data analysis without understanding the statistical background is in general impossible. We strongly recommend you to refresh your mathematical and programming skills before attending the course.

R and Bioconductor

In the afternoon exercises you will learn how to analyze data using the statistical computing environment R [http://www.r-project.org] and BioConductor [http://www.bioconductor.org], a open source software for bioinformatics. R sources and package sources can be downloaded from The Comprehensive R Archive Network at http://cran.r-project.org. Basics are explained in Introduction to R.

Participants

Ana Conesa  Center of Citrus Genomics Instituto Valenciano de Investigaciones Agrarias, Moncada (Valencia), Spain.
Andrew Harrison  Biochemistry and Molecular Biology Dept. University College London, UK.
Caroline Johnston Biochemistry and Molecular Biology Dept. University College London, UK.
Ilhem Diboun  Biochemistry and Molecular Biology Dept. University College London, UK.
Surendra Bansal  V. P. Chest Institute, University of Delhi, India.
Susanne Schwenke  Schering AG, Berlin, Germany.
Hannes-Friedrich Ulbrich  Schering AG, Berlin, Germany.
Sascha Thewes  Robert Koch-Institut, Berlin, Germany.
Katherina Zakikhany Robert Koch-Institut, Berlin, Germany.
Maximiliano Corredor-Adámez Institute of Biology, Leiden University, The Netherlands.
Andre Mäurer MPI IB, Berlin, Germany.
Yu Wang  GSF - National Research Center for Environment and Health, Neuherberg, Germany.
Achim Tresch  Fraunhofer Institut SCAI, Sankt Augustin, Germany.
Thomas Schlitt  EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
Letizia Magnoni  Sienabiotech, Siena, Italy.
Tracey J Lamb  National Institute for Medical Research, London, UK.
Marina Pollán  Cancer Epidemiology Unit, National Center for Epidemiology, Madrid, Spain.
Gunther Höning  Clinical center, University of Mainz, Germany.

Thank you for registering! This course is fully booked and closed for registration. If you will not be able to attend, please contact Florian Markowetz as soon as possible so that we can notify the people on the waiting list.

Accomodation

We recommend rooms at the Harnack-House, Ihnestrasse 16-20, Berlin-Dahlem. From there it's a five minutes walk to the MPI-MG. Please mention the title of the workshop with your registration. Contact information at http://www.harnackhaus-berlin.mpg.de.

Further information

Please contact Florian Markowetz: florian.markowetz@molgen.mpg.de.

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