Biomedical Informatics Program

Atlanta Clinical and Translational Science Institute

Joel Saltz MD, PhD Director

Specific Aims Aim 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.

Progress to Build From

• Saltz recruited and named Program Director of BIP

• Establishment of Center for Comprehensive Informatics

• Investment of $1M/year in Research IT

• BIP Architecture initiated

• Diabetes Integrated Mobile Health Solution (e-HealthyStrides) awarded

• GA Tech RFP Awards in Information Security and Testing

• Biomedical Informatics Department approved

• Studios launch

• Laboratory Information Mgmt System launch

• eCRF platform launch

• Resource discovery (eBIRT) launch

• MSM i2b2 deployed

• Minority Health Grid initiative awarded

• Cardiovascular Registry launch

• Emory i2b2 deployed

• MSM Clinical and Translational Research Web Portal launch

• Pathology Analytical Imaging Standard (PAIS) project launch

GY01-02 GY03-04 GY04

Over 347 studies leveraging BIP

Expand and Sustain Integrated BIP Collaboration 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 research

Strategy: Steering committee with CIN, BERD, and BIP leadership Architecture: Weekly working group to establish standards and

pathways to integration Institution: Key leadership at Morehouse, Emory, and GA Tech.

Integrated with Emory Informatics and Research IT Governance structures

Infrastructure and Data: Shared and integrated systems and capacities. Research, laboratory and clinical data sources

Integrated BIP Architecture working group to design a common architecture Collaborative projects

Security infrastructure Testing framework Bioinformatics support Registry implementation at Grady for quality improvement and

cardiovascular research LIMS deployment for biospecimen management i2b2 deployment for clinical data

Leverage institutional strengths for education and training Leverage over $3.8M in grant and internal funding this year

Aim 1: ACTSI-wide Federated Data Warehouse System Develop integrative, federated ACTSI information warehouse

Integrated clinical/imaging/”omic”/biomarker/tissue information should always be available

A virtually centralized, big Atlanta wide information warehouse that has all relevant data

Patients seen and information gathered at any ACTSI site, specimens sent to any affiliated core, imaging carried out at any affiliated site Give 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 efforts Security, Web Portal, Common Data Elements & Vocabularies,

Identifiers, High-performance Computing middleware, Testing framework.

ACTSI-wide Federated Research Data

Aim 2: Deploy and Support a Suite of Common Applications

A suite of interoperable repositories Clinical 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 caTissue Genomic data repositories: Gene expression datasets, microarray data,

next generation sequencing data Continued support for existing systems

CR-Assist, eBIRT: Extensions and integration with the ACTSI data warehouse infrastructure

Deployment of software from other CTSAs i2b2, REDCap

Aim 2: Common Applications (Current and Future) Infrastructure Release Key Metric # of Sites Future Plans

Resource Discovery (eBIRT)

July 2010 421 services55 cores1,263 searches

4 Integrate with VIVO and Eagle Eye. Add new data types (e.g., collaborators)

Electronic data capture forms

April 2010 19 studies508 forms

4 Expand clinical data integration/import capacity, integrate form library with common data element infrastructure

Laboratory Information Management (LIMS)

July 2010 323 studies350,000 samples/aliquots

3 Implement within new laboratories across the ACTSI institutions. Integrate into overall BIP distributed query architecture

MSM i2b2 Oct 2010 468,000 patients 2 Integrate with Emory i2b2. Expand data sources. Open up to investigators. Explore integration with LIMS.

CIN Participant tracking scheduling (CR-Assist)

Dec. 2005 119 active studies4,185 participants243 users

4 Expand functionality based on CIN needs

Common Applications (Future)

Infrastructure Estimated Release Date

Key Metric Future Direction

MSM Research Portal

February 2011 # of active users# of active projects

Integrate with ACTSI Web portal; Implement a web mash-up for multiple databases within the portal; Searchable research projects library

Emory I2b2 March 2011 # of studies supported# of data elements# of queries

Integrate with MSM i2b2; Implement Clinical Registries databases and user interface with i2b2; Integrate with ACTSI security infrastructure

Clinical Registries March 2011 # of studies supported# of data elements

Implement Cardiovascular, Diabetes and Co-morbidities Registries; Implement direct query by investigators; Support export into statistical apps; Support queries through ACTSI Web portal

Research PACS May 2012 # of studies# of images

Integrate with clinical data via the Registries; Implement combined clinical/image data views

Aim 3: Engage ACTSI investigators and research teams

Goal: 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 participants Contributions of Informatics support functions to

investigator proposals

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 structures

Translational CardioVascular Research: Minority Health Grid and CardioVascular Research Grid: Develop new CV-related data management and analysis tools and resources

Integrated Mobile Health Solution: Develop tools based on Microsoft Health Vault to empower the diabetic patient, to manage his/her diabetes with the help of a physician and a health coach

Aim 4: Informatics Training Program Leverage existing expertise and programs at partner institutions Coordinate 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 tools

Establish Biomedical Informatics PhD track in Computer Science and Informatics PhD Program

Establish learning material based on national competencies and initiatives, such as the AMIA 10x10

Establish an Informatics certificate training program in clinical informatics

Align with subspecialty board certification in informatics and Emory Department of Biomedical Informatics

Implementation of BIP

Exec. Committee• Priorities• Policies

Exec. Committee• Priorities• Policies

BIP Architecture• Standards• Interoperability• Privacy and Security

BIP Architecture• Standards• Interoperability• Privacy and Security

Infrastructure• Systems and Tools• Services

Infrastructure• Systems and Tools• Services

Investigators• Research• Proposals• Studios

Investigators• Research• Proposals• Studios

Informs Prioritizes

Informs

Utilizes Informs

Evaluates

Implementation of BIP Examples of initial set of projects to be targeted:

In Silico Study of Brain Tumors Cardiovascular Studies Minority Health Genomics and Translational Research

Bio-Repository Database (MH-GRID) Early Hospital Readmission CFAR (Center for AIDS Research) HIV Data Integration Clinical Interaction Network (CIN) Repositories Metadata Analysis of Glycan Structures Integrated Mobile Health Solution (eHealthyStrides)

National Contributions Cardiovascular Research Grid (NHLBI): Cardiovascular data

registries, security, data federation caBIG (NCI): Development of core caGrid, imaging, security

infrastructure, caGrid 2.0 design HL-7: Liaison between HL-7 and NCI National Center for Biomedical Oncology (NCBO): Semantic

modeling in transplant studies Southeastern CTSA Consortium Advanced Technology Consortium: Image and RT treatment

quantification TRIAD: CTSA data federation Kaiser NLP initiative (CERhub): Multi-site NLP analysis of

asthma, smoking cessation