1. MI-compliant ISA
configurations
Philippe Rocca-Serra
Oxford University, Oxford, UK
MIBBI workshop, December,1st-3rd 2010, Germany*
*(...and Heathrow airport)
proccaserra@gmail.com

2. ISA infrastructure overview
mage-tab | pride-ml | sra-xml | others

3. IISAcreator: a tool for reporting studies

4. structured reports...declaring variables

5. Making sense: ontology term tagging

7. Not just microarray data....

8. Telling more about experimental design

9. A focus on standards...
comply to
common
standards

10. MIAPE
MIGS XML
XML
MIMS
MIAME
XML XML
MIENS
XML
ISAcreator Configurator provides configurations to ISAcreator...
These configurations tell ISAcreator what is the minimum
amount of information needed to describe experiments.
ISAcreator is packaged with a default set of configurations,
however you can create your own...

11. From MIENS checklist...
http://precedings.nature.com/documents/5252/version/2

12. ISA configurator tool

13. ....to MIENS compliant ISA
configuration

14. Using the Configuration in ISA
creator

15. Using the Configuration in ISA
creator

16. enforcing next gen
sequencing requirements

17. MISFISHIE configuration
• Emage project at MRC,in Edimborough

18. creating an ISA- MISFIHIE
configuration

19. Using ISA-MISFIHIE
configuration

20. Using ISA-MISFIHIE
configuration

21. Conclusions and future
work
• From requirements to data collection
• Coherent framework helping implementing
annotation guidelines
• Outreach to existing efforts to help and assist
designing configurations (Chip-Seq, RNA
structure mapping....)
• Further integration with MIBBI checkout
• Creation of a repository for those resources

22. MIBBI project / ISA
configurations

23. Acknowledgements
Dawn Field, NEBC,
Eamonn Maguire, Un. of Oxford
Susanna Sansone, Un. of Oxford
Annapaola Santarsiero, Un. of Oxford
Peter Sterk, NEBC, WTSC
Chris Taylor, NEBC, MIBBI
All MIBBI collaborators