Shared Health Research Information Network Andrew McMurry, MS SHRINE Architect Harvard Medical School Center for BioMedical Informatics Children’s Hospital.

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Presentation transcript:

Shared Health Research Information Network Andrew McMurry, MS SHRINE Architect Harvard Medical School Center for BioMedical Informatics Children’s Hospital Informatics Program Harvard/MIT HST Boston University Bioinformatics PHD Student hms.harvard.edu Current Status, Demo, and Open Source

History of the SHRINE world in 1 minute Partners RPDR  i2b2 Data Repository  Shawn Murphy et all (wont steal their thunder here)  Everyday patient encounters  huge research cohorts SPIN  cross-hospital query model  Extract, Transform, Load  Federated query over multiple independent hospitals Harvard CTSA funded Recombinant deploying i2b2 across the country Overly simplified: clinical data repository + federated query = SHRINE

SHRINE Technical Architecture Bird’s Eye View  Leverage local i2b2 deployments  Broadcast queries and aggregate responses across autonomous sites as if they were “one clinical data warehouse”  There is no central database  Connect sites in a peer-to-peer or hub-spoke fashion

Architecture Technical Architecture, “cell” view

Current Status : in BETA! East Coast : Harvard Effort  BETA system running at Harvard across BIDMC, Children’s, and Partners representing both BWH and MGH. Last AUG:  Prototype 1 year of data with demographics and diagnosis  IRB approval for demonstration only NOW  Patient data from  Demographics, Diagnosis, Medications, some Labs  Full IRB approvals

Current Status : in BETA! Demo use cases, things to think about…..  Lung cancer cases  requesting biospecimens  Irritable Bowel Syndrome  requesting sized cohorts  Pediatric rheumatology  Creating national registry

Current Status West Coast : CICTR Effort University of Washington UCSF UC Davis Nick Anderson et all

Current Status National Registry : Pediatric Rheumatology “Grand Opportunity” Grant 60 institutions, 2 years SHRINE has been selected as inter-institutional glue Consented patients, prospective data collection Shared Virtual Machine Hosting

SHRINE Open Source : brewing in the background Fast recap of 2006 and 2009 Open Source proposals: 1. Write documentation as if we are writing code stubs  Preconditions+  Steps (Algorithm)+  Post-conditions= Use Cases or “Scenarios” 2. Test driven development  Write the test first  Implement second  Regression test everything all the time 3. Continuous Integration  Test everything every time you change any code

SHRINE Open Source Process  Leveraging routine development activities 1. Public access to bug tracking system 2. Public access to latest source code 3. Public mailing lists Shrine-users Shrine-developers Shrine-announce 4. Test Driven Development 5. Continuous integration (daily builds of the complete software)

Acknowledgements: Core SHRINE team Zak Kohane (SHRINE Lead / HMS) Griffin Weber (HMS CTO / bidmc) Shawn Murphy (I2B2 CRC / partners) Dan Nigrin (Children’s CIO) Ken Mandl(Public Health Use Cases/ CHIP IHL) Sussane Churchill (I2B2 Executive director) Doug Macfadden(HMS CBMI IT Director) Matvey Palchuck (Ontology Lead / HMS) Andrew McMurry (Architect / HMS) Could give an entire talk on all the collaborators, multi-institutional effort. Asking forgiveness from those not listed

Acknowledgements: Core SPIN team Zak Kohane (SPIN PI / HMS) Frank Kuo (PSL Program Director / BWH) John Gilbertson(PSL Pathologist / MGH) Mark Boguski (PSL Pathologist / BIDMC) Antonio Perez(PSL Pathologist / Children’s) Mike Banos(PSL Developer / BWH ) Ken Mandl (Biosurviellance PI/ Children’s) Clint Gilbert(Biosurviellance Dev Lead / Children’s) Greg Polumbo(SPIN Developer/ HMS) Ricardo Delima (SPIN Developer / NCI at HMS) Britt Fitch (SPIN Developer / HMS

Acknowledgements: Core I2b2 team

Thank You   Andrew_McMurry hms.harvard.edu