mibbi workshop-isa-project
DESCRIPTION
TRANSCRIPT
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MI-compliant ISA configurations
Philippe Rocca-SerraOxford University, Oxford, UK
MIBBI workshop, December,1st-3rd 2010, Germany**(...and Heathrow airport)
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mage-tab | pride-ml | sra-xml | others
ISA infrastructure overview
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IISAcreator: a tool for reporting studies
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structured reports...declaring variables
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Making sense: ontology term tagging
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Not just microarray data....
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Telling more about experimental design
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A focus on standards...
comply to common standards
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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...
MIAPEXML
MIAMEXML
MIMSXML
MIENSXML
MIGSXML
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From MIENS checklist...http://precedings.nature.com/documents/5252/version/2
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ISA configurator tool
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....to MIENS compliant ISA configuration
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Using the Configuration in ISA creator
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Using the Configuration in ISA creator
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enforcing next gen sequencing requirements
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MISFISHIE configuration• Emage project at MRC,in Edimborough
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creating an ISA- MISFIHIE configuration
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Using ISA-MISFIHIE configuration
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Using ISA-MISFIHIE configuration
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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
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MIBBI project / ISA configurations
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AcknowledgementsDawn Field, NEBC,Eamonn Maguire, Un. of OxfordSusanna Sansone, Un. of OxfordAnnapaola Santarsiero, Un. of OxfordPeter Sterk, NEBC, WTSCChris Taylor, NEBC, MIBBI
All MIBBI collaborators