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FBIRN Federated Informatics Research Environment (FIRE)

FBIRN Federated Informatics Research Environment (FIRE). Integration of Knowledge. What are the consequences of diabetic control on brain function?. Portal. Web. PubMed, Expasy. fMRI. Clinical. ERP. Receptor Density. Structure. Integration of Knowledge.

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FBIRN Federated Informatics Research Environment (FIRE)

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  1. FBIRN Federated Informatics Research Environment (FIRE)

  2. Integration of Knowledge What are the consequences of diabetic control on brain function? Portal Web PubMed, Expasy fMRI Clinical ERP Receptor Density Structure

  3. Integration of Knowledge What are the physiological dysfunctions in autism? Portal Web PubMed, Expasy fMRI Clinical ERP Receptor Density Structure

  4. Integration of Knowledge What are the physiological bases of cognitive dysfunction in negative symptom schizophrenia? Portal Web PubMed, Expasy fMRI Clinical ERP Receptor Density Structure

  5. = PostgreSQL test site = Data Integration Environment = Phase 1 / Phase 2 data Map of FBIRN Federated Databases p1 p2 UMN FIRE p1 MGH FIRE p2 BWH FIRE p1 p2 Stanford FIRE Yale FIRE p1 UI FIRE p1 p2 p2 UCLA FIRE p2 Duke: 67 BWH: 22 MGH: 12 UCLA: 54 UCSD: 6 UCI: 71 UNM: 57 UI: 64 UMN: 57 Yale: 66 UCI FIRE p1 Duke FIRE p1 p2 UNM FIRE p2 419 Subject Visits p1 UCSD FIRE p2 p1 3174 Subject Assessments

  6. Results Images in SRB • FIPS: FSL Image • Processing Scripts SRB/ Local FIPS Results fMRI Scanner • Results with standard descriptions • in HIDB User Query Federated Informatics Research Environment FMRI Images Automated Image Upload to SRB/HID for sharing URL links HIDB • Clinical Data • Computer Aided Scale Input • (CALM/GAME) • Clinical Data Entry Interface • Public Query • Of all databases available

  7. Multi-site/source imaging recommendations Imaging calibration tools: Stability phantom Automated image QA Data formatting issues: XCEDE For more information, see: www.nbirn.net Data Collection Tools

  8. Results Images in SRB • FIPS: FSL Image • Processing Scripts SRB/ Local FIPS Results fMRI Scanner • Results with standard descriptions • in HIDB User Query Federated Informatics Research Environment FMRI Images Automated Image Upload to SRB/HID for sharing URL links HIDB • Clinical Data • Computer Aided Scale Input • (CALM/GAME) • Clinical Data Entry Interface • Public Query • Of all databases available

  9. Distributed Data Retrieval: Querying

  10. Distributed Data: Mediated Query Same traveling subject At different sites

  11. Automated Weekly Data Management

  12. Results Images in SRB • FIPS: FSL Image • Processing Scripts SRB/ Local FIPS Results fMRI Scanner • Results with standard descriptions • in HIDB User Query Federated Informatics Research Environment FMRI Images Automated Image Upload to SRB/HID for sharing URL links HIDB • Clinical Data • Computer Aided Scale Input • (CALM/GAME) • Clinical Data Entry Interface • Public Query • Of all databases available

  13. Analysis Pipelines: FBIRN Image Processing Scripts Database Retrieval Imaging Data Retrieval Image Quality Assurance Analysis Image Processing Pipelines

  14. Final step: Share the Results Data Upload Organize Describe Database Management SRB Remote Databases Local Databases Data Processing Data Acquisition Integrate Slicer Freesurfer Share Query QueryAtlas FIPS Retrieve Discover Visualize Analyze

  15. More details on these tools: http://www.nbirn.net/research/function/fbirn_tools_primer.shtm More details on FBIRN: http://www.nbirn.net/research/function/index.shtm Questions? Contact the Project Manager: jessica.turner@uci.edu Contacts

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