Lorentz Center - Transcriptomics and Proteomics in Zebrafish from 13 Mar 2006 through 22 Mar 2006
  Current Workshop  |   Overview   Back  |   Home   |   Search   |     

    Transcriptomics and Proteomics in Zebrafish
    from 13 Mar 2006 through 22 Mar 2006

 
- Introductory lecture on available microarray platforms Georg Otto

Monday 13 March

 

13:00 14:00 Registration

 

14:00 14:30 Annemarie Meijer (Institute of Biology, Leiden University)

Welcome and Introduction to the workshop programme

 

14:30 15:30 Georg Otto (Max Plack Institute Tuebingen)

Microarray platforms

 

15:30 16:00 Coffee and tea break

 

16:00 17:00 Andre Wijfjes (ServiceXS)

Labelling techniques

 

17:00 18:00 Wine and Cheese party

 

 

Tuesday 14 March

 

09.00 10.00 Peter Bram t Hoen (Leiden University Medical Center)

Experimental design of microarray experiments

 

10:00 10:20 Coffee and tea break

 

10:20 11:15 Georg Otto (Max Plack Institute Tuebingen)

Zebrafish model-specific considerations

 

Peter Bram t Hoen (Leiden University Medical Center)

Discussion on experimental design

 

11:15 12:00 Max Corredor (Institute of Biology, Leiden University)

Microarray analysis software

 

12:00 13:00 Lunch

 

13:00 13:45 Astrid Bruckmann (Institute of Biology, Leiden University)

Introduction to proteomics

 

13:45 14:05 Gabby Krens (Institute of Biology, Leiden University)

Background to the workshop microarray experiment on MAPKs

 

14:05 14:25 Annemarie Meijer (Institute of Biology, Leiden University)

Practical setup of the workshop microarray experiment

 

14:25 14:40 Andre Wijfjes (ServiceXS)

RNA quality control

 

14:40 15:00 Coffee and tea break

 

15:00 18:00 microarray practical: RNA quality checks by Lab-on-chip analysis and preparations of RNA samples for labeling

 

 

Wednesday 15 March

 

09:00 18:00 microarray practical: cDNA synthesis and setting up overnight IVT reactions proteomics practical: 2D electrophoresis

 

 

Thursday 16 March

 

09:00 18:00 microarray practical: cRNA purification, lab-on-a-chip checking of cRNA quality, dye coupling, purification and setting up hybridizations proteomics practical: 2D electrophoresis

 

 

Friday 17 March

 

09:00 09:25 Astrid Bruckmann (Institute of Biology, Leiden University)

Comparative proteomics and transcriptomics studies in yeast

 

09:25 09:50 Bob van de Water (Leiden/Amsterdam Institute of Drug Research)

Phosphoproteomics

 

09:50 10:10 Coffee and tea break

 

10:10 11:00 Carl-Philipp Heisenberg (Max Planck Institute Dresden)

Proteomics in zebrafish

 

11:00 11:45 Eric Cortegianni (Ambion)

miRNA profiling tools

 

11:45 13:00 Lunch

 

13:00 13:30 Astrid Bruckmann (Institute of Biology, Leiden University)

Proteomics analysis software

 

13:30 14:45 PC practical: proteomics analysis using PDQuest

 

14:45 15:00 Coffee and tea break

 

15:00 16:00 Paul Hensbergen (Leiden University Medical Center)

Mass spectrometry

16:00 18:00 Excursion to mass spectrometry department

 

 

Saturday 18 March

 

ZF-MODELS project meeting / Free day for external participants

 

 

Sunday 19 March

 

14:00 15:00 Marc Saric (Max Plack Institute Tuebingen)

Miame guidelines, database submission of microarray data, ZFexpresso

 

15:00 16:00 Mario Caccamo/Kerstin Jekosh (Sanger Institute)

Ensembl zebrafish genome server

 

16:00 16:30 Coffee and tea break

 

16:30 18:00 Peter van de Putte (Leiden Institute of Advanced Computer Science)

Transcriptomics datamining

 

 

Monday 20 March

 

09:00 09:50 Michael Peppelenbosch (University of Groningen)

Peptide arrays and kinomics

 

09:50 10:10 Coffee and tea break

 

10:10 11:00 Fons Verbeek (Leiden Institute of Advanced Computer Science)

Gene ontology

 

11:00 12:00 Georg Otto (Max Plack Institute Tuebingen)

Data processing using Base and R-Statistics

 

12:00 12:45 Lunch

 

12:45 18:00 PC-practical: Ensemble instruction sessions and analysis of microarray results

 

 

Tuesday 21 March

 

09:00 09:45 Wim Dorlijn (Agilent)

Custom arrays

 

09:45 10:00 Coffee and tea break

 

10:00 11:00 Paul Eilers (Leiden University Medical Center)

Statistical analysis of microarrays (normalisation & replication)

 

11:00 12:00 Jelle Goeman (Leiden University Medical Center)

Advanced analysis of microarrays with R; methods from BioConductor

 

12:00 12:45 Lunch

 

12:45 18:00 PC practical: analysis of microarray results, integration of all data

 

 

Wednesday 22 March

 

09:00 12:00 Concluding meeting to discuss results

 

12:00 Closure

 

 

 

 



   [Back]