Courses in Practical DNA Microarray Analysis 2003
November 10 - 13 in Berlin
This course is fully booked and closed for registration.
Datasets and additional packages used in the practical sessions can be found here, links to the tutorial slides and assignments in the table below.
| Monday, Nov 10 | ||
| 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, Nov 11 | ||
| 09.00-10.30 | Exploratory data analysis | Jörg Rahnenführer |
| 10.30-12.00 | Annotation | Benedikt Brors |
| 13.30-14.30 | BioConductor | Wolfgang Huber |
| 14.45-17.00 | Exercises: 2x2 factorial design | Wolfgang Huber |
| Wednesday, Nov 12 | ||
| 09.00-10.15 | Molecular Diagnosis | Rainer Spang |
| 10.15-11.00 | Classification by Support Vector Machines | Florian Markowetz |
| 11.00-12.00 | Resampling and the bootstrap | Axel Benner |
| 13.30-17.00 | Exercises: classification | Florian Markowetz |
| Thursday, Nov 13 | ||
| 09.00-11.00 | Design of microarray experiments | Ulrich Mansmann |
| 11.00-12.00 | Model Assessment and Selection | Axel Benner |
| 12.00-12.30 | Screening by ROC curve analysis | Axel Benner |
| 13.30-17.00 | Exercises: Model selection, Bootstrap | Ulrich Mansmann Axel Benner |
How to find us
We meet at the Max-Planck-Institute for Molecular Genetics, Ihnestr 73, 14195 Berlin-Dahlem, main building (Turm 2) ground floor, big seminar room, on Mon 10 Nov 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 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
| • | Peter Martus | FU Berlin | |
| • | Samuel Lattimore | Cancer Research UK, London | |
| • | Balazs Gyorffy | HU Berlin | |
| • | Jose Gadea Vagas | Institute for Molecular and Cellular Biology of Plants, UPV-CSIC Valencia, Spain. | |
| • | Rothin Strehlow | Fraunhofer Institut Biomedizinische Technik, IBMT, Abteilung Molekulare Bioanalytik & Bioelektronik, Germany | |
| • | Qing Dong | RZPD Deutsches Ressourcenzentrum für Genomforschung, Berlin, Germany | |
| • | Raghunadha Reddy Burri | Max-Delbrück-Center for Molecular Medicine, Berlin, Germany | |
| • | Michael Meyners | Boehringer Ingelheim Pharma, Biberach an der Riss, Germany | |
| • | Yang Xinan | Southeast University, China | |
| • | Qihua Tan | Odense University Hospital, Denmark | |
| • | Volker Hammen | Rheumatologie, Charite Berlin, Germany | |
| • | Florian Graedler | GSF National Research Center for Health and Environment, Neuherberg, Germany | |
| • | Roel Bakker | Hogeschool Rotterdam, the Netherlands | |
| • | Stefano Calza | Department of Biomedical Science and Biotechnology, Section Biomedical Statistics and Biometry, University of Brescia, Italy | |
| • | Roy A. Dalmo | Norwegian College of Fishery Science, Dpt. Marine Biotechnology, University of Tromsoe, Norway. | |
| • | Torunn P. Roekenes | Norwegian College of Fishery Science, Dpt. Marine Biotechnology, University of Tromsoe, Norway. | |
| • | Tom C. Tonheim | Norwegian College of Fishery Science, Dpt. Marine Biotechnology, University of Tromsoe, Norway. |
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 offer you single or double rooms at the Harnack-House, Ihnestrasse 16-20, Berlin-Dahlem. From there it's a five minutes walk to the MPI-MG. Please register before October 09 and 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