Mibbi workshop-isa-project

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Mibbi workshop-isa-project

  1. 1. MI-compliant ISA configurations Philippe Rocca-Serra Oxford University, Oxford, UKMIBBI workshop, December,1st-3rd 2010, Germany* *(...and Heathrow airport) proccaserra@gmail.com
  2. 2. ISA infrastructure overview mage-tab | pride-ml | sra-xml | others
  3. 3. IISAcreator: a tool for reporting studies
  4. 4. structured reports...declaring variables
  5. 5. Making sense: ontology term tagging
  6. 6. Not just microarray data....
  7. 7. Telling more about experimental design
  8. 8. A focus on standards... comply to common standards
  9. 9. MIAPE MIGS XML XML MIMS MIAME XML XML MIENS XMLISAcreator 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...
  10. 10. From MIENS checklist...http://precedings.nature.com/documents/5252/version/2
  11. 11. ISA configurator tool
  12. 12. ....to MIENS compliant ISA configuration
  13. 13. Using the Configuration in ISA creator
  14. 14. Using the Configuration in ISA creator
  15. 15. enforcing next gensequencing requirements
  16. 16. MISFISHIE configuration• Emage project at MRC,in Edimborough
  17. 17. creating an ISA- MISFIHIE configuration
  18. 18. Using ISA-MISFIHIE configuration
  19. 19. Using ISA-MISFIHIE configuration
  20. 20. 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
  21. 21. MIBBI project / ISA configurations
  22. 22. AcknowledgementsDawn Field, NEBC,Eamonn Maguire, Un. of OxfordSusanna Sansone, Un. of OxfordAnnapaola Santarsiero, Un. of OxfordPeter Sterk, NEBC, WTSCChris Taylor, NEBC, MIBBIAll MIBBI collaborators

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