Actsi bip overview jan 2011
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The document outlines the aims and progress of the Biomedical Informatics Program at the Atlanta Clinical and Translational Science Institute. The four main aims are to: 1) develop a federated system to link research databases, 2) deploy applications for clinical data management and analysis, 3) engage investigators in using informatics resources, and 4) enhance informatics training. Recent progress includes deploying several clinical registries and data repositories. Future plans include further integrating resources between partner organizations and leveraging over $3.8 million in funding.
Actsi bip overview jan 2011
- 1. Biomedical Informatics ProgramAtlanta Clinical and Translational Science InstituteJoel Saltz MD, PhD Director
- 2. Specific AimsAim 1: Develop and deploy a standards-based ACTSI-wide federated system that will link inter and intra-institutional biomedical research databases collected, referenced, and managed by ACTSI institutions. Aim 2: Deploy and support a suite of common applications for management of clinical, omics, imaging, ECG, and tissue data and for integrative analysis of these datasets. Aim 3: Engage ACTSI investigators to maximize the impact of ACTSI investigator studies and proposals through coordinated use of bioinformatics, biostatistics, and informatics. Aim 4: Develop an enhanced training program to educate clinicians and researchers on the principles and best practices of biomedical informatics and train them on biomedical tools and infrastructures.
- 3. Progress to Build FromGY01-02GY03-04GY04 Minority Health Grid initiative awarded
- 6. MSM Clinical and Translational Research Web Portal launch
- 7. Pathology Analytical Imaging Standard (PAIS) project launch
- 8. Saltz recruited and named Program Director of BIP
- 9. Establishment of Center for Comprehensive Informatics
- 10. Investment of $1M/year in Research IT
- 12. Diabetes Integrated Mobile Health Solution (e-HealthyStrides) awarded
- 13. GA Tech RFP Awards in Information Security and Testing
- 14. Biomedical Informatics Department approved
- 15. Studios launch
- 16. Laboratory Information Mgmt System launch
- 18. Resource discovery (eBIRT) launch
- 19. MSM i2b2 deployedOver 347 studies leveraging BIP
- 20. Expand and Sustain Integrated BIPCollaboration between Emory, Georgia Tech, and Morehouse School of Medicine Draw on the complementary strengths of partner organizations in computer science, biomedical informatics, bioinformatics, and translational researchStrategy: Steering committee with CIN, BERD, and BIP leadershipArchitecture: Weekly working group to establish standards and pathways to integrationInstitution: Key leadership at Morehouse, Emory, and GA Tech. Integrated with Emory Informatics and Research IT Governance structuresInfrastructure and Data: Shared and integrated systems and capacities. Research, laboratory and clinical data sources
- 21. Integrated BIPArchitecture working group to design a common architectureCollaborative projectsSecurity infrastructureTesting frameworkBioinformatics supportRegistry implementation at Grady for quality improvement and cardiovascular researchLIMS deployment for biospecimen managementi2b2 deployment for clinical data Leverage institutional strengths for education and trainingLeverage over $3.8M in grant and internal funding this year
- 22. Aim 1: ACTSI-wide Federated Data Warehouse SystemDevelop integrative, federated ACTSI information warehouse Integrated clinical/imaging/”omic”/biomarker/tissue information should always be availableA virtually centralized, big Atlanta wide information warehouse that has all relevant dataPatients seen and information gathered at any ACTSI site, specimens sent to any affiliated core, imaging carried out at any affiliated siteGive me all gene expression, SNP, virtual slide images, hematology studies and CMV serologies for kidney transplant candidates accrued into Study X or Study Y between Feb 2011 and Jan 2012 who were on the kidney transplant waiting list as of November 1, 2010. Development effortsSecurity, Web Portal, Common Data Elements & Vocabularies, Identifiers, High-performance Computing middleware, Testing framework.
- 23. ACTSI-wide Federated Research Data
- 24. Aim 2: Deploy and Support a Suite of Common ApplicationsA suite of interoperable repositoriesClinical registries: Initially for cardiovascular disease, diabetes and co-morbidities. Data sources: Emory Healthcare Clinical Data Warehouse and the Grady Health System Diabetes Patient Tracking System. Image repositories: Radiology images, Pathology images, image markup and annotations Biospecimen repositories: Nautilus LIMS and caTissueGenomic data repositories: Gene expression datasets, microarray data, next generation sequencing dataContinued support for existing systemsCR-Assist, eBIRT: Extensions and integration with the ACTSI data warehouse infrastructureDeployment of software from other CTSAsi2b2, REDCap
- 25. Aim 2: Common Applications (Current and Future)
- 27. Aim 3: Engage ACTSI investigators and research teamsGoal: Maximize the impact of ACTSI investigator studies and proposals through coordinated use of bioinformatics, biostatistics, and informatics. Engagement being carried out via Studio program, coordinated effort between CIN, BERD, and BIP Interactions with investigators and research groups by the BIP, BERD, and CIN participantsContributions of Informatics support functions to investigator proposals
- 28. Aim 3: Engage ACTSI investigators and research teams Examples include:Metadata Analysis of Glycan Structures: Develop a custom-built system to help visualize, identify, and cluster glycan structures in order to help discover glycan structuresTranslational CardioVascular Research: Minority Health Grid and CardioVascular Research Grid: Develop new CV-related data management and analysis tools and resourcesIntegrated Mobile Health Solution: Develop tools based on Microsoft Health Vaultto empower the diabetic patient, to manage his/her diabetes with the help of a physician and a health coach
- 29. Aim 4: Informatics Training ProgramLeverage existing expertise and programs at partner institutionsCoordinate with RETCD Masters of Science in Clinical Research Establish an informatics academy for research and clinical leadership to learn key informatics principles, best practices, and toolsEstablish Biomedical Informatics PhD track in Computer Science and Informatics PhD ProgramEstablish learning material based on national competencies and initiatives, such as the AMIA 10x10Establish an Informatics certificate training program in clinical informaticsAlign with subspecialty board certification in informatics and Emory Department of Biomedical Informatics
- 30. Implementation of BIPExec. CommitteePriorities
- 32. Interoperability
- 34. Proposals
- 36. ServicesImplementation of BIPExamples of initial set of projects to be targeted:
- 37. In Silico Study of Brain Tumors
- 39. Minority Health Genomics and Translational Research Bio-Repository Database (MH-GRID)
- 41. CFAR (Center for AIDS Research) HIV Data Integration
- 42. Clinical Interaction Network (CIN) Repositories
- 43. Metadata Analysis of Glycan Structures
- 44. Integrated Mobile Health Solution (eHealthyStrides)National ContributionsCardiovascular Research Grid (NHLBI): Cardiovascular data registries, security, data federationcaBIG (NCI): Development of core caGrid, imaging, security infrastructure, caGrid 2.0 designHL-7: Liaison between HL-7 and NCINational Center for Biomedical Oncology (NCBO): Semantic modeling in transplant studiesSoutheastern CTSA ConsortiumAdvanced Technology Consortium: Image and RT treatment quantificationTRIAD: CTSA data federationKaiser NLP initiative (CERhub): Multi-site NLP analysis of asthma, smoking cessation
Editor's Notes
- #6: Aggregate over multiple years and show graph
- #10: eBIRT – Atlanta VAMC, Emory University, Morehouse School of Medicine, Georgia TechCR-Assist – Emory University Hospital, Emory University Midtown, Grady, CHOAEDC – Emory, GradyLIMS – Emory University Hospital, Emory University Midtown, Grady Hospital, (Soon to be: Morehouse, CHOA)
- #11: eBIRT – Atlanta VAMC, Emory University, Morehouse School of Medicine, Georgia TechCR-Assist – Emory University Hospital, Emory University Midtown, Grady, CHOAEDC – Emory, GradyLIMS – Emory University Hospital, Emory University Midtown, Grady Hospital, (Soon to be: Morehouse, CHOA)Data extraction services: Emory University Hospital, Emory University Midtown. Soon to include Grady and potentially HopeAIW – Emory University Hospital, Emory University Midtown, EUOHS, Emory ClinicData RegistryI2b2: Morehouse, Grady, Emory