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Transcript 
Minimum Information About a
Microarray Experiment
- MIAME
MGED 5 workshop
Which data to share?
Array scans
Quantitations
Samples
Genes
Gene expression
data matrix
Spots
Raw data
Quantitation
matrices
Gene
expression
levels
Annotations
Genes
Samples
Gene
annotations
Sample
annotations
Gene expression
matrix
Gene expression
levels
source
Sample
treatment
Design
protocols
elements
(spots)
RNA extract
labelled
nucleic acid
Sample
annotation
hybridisation
array
image
Gene
annotation
quantitation
matrix
Sample
Sample
Sample
Sample
Sample
Experiment
Design
Design
Design
Design
Design
elements
elements
elements
elements
(spots)
elements
(spots)
(spots)
(spots)
(spots)
RNA
extract
RNA
extract
RNA
extract
RNA
RNAextract
extract
labelled
labelled
labelled
labelled
nucleic
labelled
acid
nucleic
acid
nucleic
acid
nucleic
nucleicacid
acid
hybridisation
hybridisation
hybridisation
hybridisation
hybridisation
array
array
array
array
array
Gene
expression
data matrix
Gene
expression
measurements
transformation
integration
Sample
Sample
Sample
Sample
Sample
Experiment
Design
Design
Design
Design
Design
elements
elements
elements
elements
(spots)
elements
(spots)
(spots)
(spots)
(spots)
RNA
extract
RNA
extract
RNA
extract
RNA
RNAextract
extract
labelled
labelled
labelled
labelled
nucleic
labelled
acid
nucleic
acid
nucleic
acid
nucleic
nucleicacid
acid
MIAME –
the content
(annotation)
of all boxes
and lines
should be
given
hybridisation
hybridisation
hybridisation
hybridisation
hybridisation
array
array
array
array
array
Gene
expression
data matrix
normalization
integration
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
Nature and The Lancet is
adopting compliance to MIAME
checklist as a requirement for
publishing microarray papers!
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
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