1. Minimum Information About a Microarray Experiment - MIAME MGED 5 workshop

3. Raw data Array scans Spots Quantitations Quantitation matrices Genes Samples Gene expression data matrix Gene expression levels Which data to share?

4. Samples Genes Gene expression levels Sample annotations Gene annotations Gene expression matrix Annotations

5. hybridisation labelled nucleic acid array RNA extract source Sample treatment elements (spots) Design protocols image quantitation matrix Sample annotation Gene annotation

6. hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design Experiment Gene expression data matrix transformation integration Gene expression measurements

7. hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design hybridisation labelled nucleic acid array RNA extract Sample elements (spots) Design Experiment Gene expression data matrix normalization integration MIAME – the content (annotation) of all boxes and lines should be given

8. MIAME ‘checklist’ to authors and reviewers Experimental design Samples used, RNA extraction and labelling Hybridisation Measurement data and specifications –(Raw images) –Image quantitation (data and specification) –Gene expression data matrix (data and transformations) Array design

9. Nature and The Lancet is adopting compliance to MIAME checklist as a requirement for publishing microarray papers!

10. Questions Is MIAME a good or a bad idea? Is everything what is included in MIAME really necessary for data sharing? Is something missing? How would you like MIAME to be changed? www.mged.org/miame