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A transcriptomic analysis of photomorphogenesis in  Arabidopsis Thaliana Arabidopsis Thaliana ,[object Object],[object Object],[object Object],[object Object],UCC,  Department of Microbiology  19 September 2007
Outline ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Why is  Arabidopsis thaliana  a good system ? ,[object Object],[object Object],[object Object],[object Object],[object Object]
And why perhaps not so good.... ,[object Object],[object Object],[object Object],[object Object],[object Object]
Photomorphogenesis in  Arabidopsis thaliana Arabidopsis thaliana ,[object Object],[object Object],[object Object],[object Object],[object Object]
The data ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Strategy ,[object Object],[object Object],[object Object]
Finding differentially expressed genes ,[object Object],[object Object],[object Object],[object Object],[object Object]
Test for significance ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Finite sample size :- bootstrapping ,[object Object],[object Object],[object Object],[object Object],[object Object]
False Detection Rate ,[object Object],[object Object],[object Object],[object Object],[object Object]
Initial Results ,[object Object],[object Object],[object Object],[object Object]
Functional Classification :- it should be easy.... ,[object Object],[object Object],[object Object],[object Object]
Functional Classification :- but it isn’t.... ,[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],Over-representation Under-representation log(p)
Clustering :- Understanding the time behaviour ,[object Object],[object Object],[object Object],[object Object]
Yes, but what does it mean ? ,[object Object]
First Phase ,[object Object],[object Object],[object Object],[object Object]
Regulator (?) classes ,[object Object]
Second Phase ,[object Object],[object Object],[object Object]
Ribosome working overtime
Hormones ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Third Phase ,[object Object],[object Object]
Cell Wall ,[object Object],[object Object],[object Object],[object Object]
Summary of what’s been seen ,[object Object],[object Object],[object Object],[object Object]
Where to go from here ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Acknowledgements School of Biological Sciences,  Royal Holloway Computer Science,  Royal Holloway Department of Molecular Genetics, Ghent University Institute of Biotechnology, University of Cambridge ,[object Object],[object Object],[object Object]

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