After an illuminating keynote by David Blumenthal, we heard of SHRINE implementations at Harvard, West Coast, and in Europe (the latter embryonic) as well as large national registries (IBD and RA) powered by SHRINE. In the second day, with a kickoff keynote by Patrick Taylor, we addressed the thorny issue of the regulatory, ethical and institutional aspects of SHRINE data sharing. The video and slides from this meeting will be available shortly.
The first annual i2b2 meeting was kicked off today (6/28) at noon at Harvard Medical School. After my introduction, Shawn Murphy provided the current roadmap and answered specific technical questions. Robert Plenge described the genomic studies in rheumatoid arthritis, preliminary results regarding cardiovascular disease
Bill Adams described his HOME (Health Outcome Monitoring and Evaluation) cell for i2b2 and had the temerity to run a live demonstration. They developed 21 measures around healthcare outcomes (e.g. lipid control, smoking cessation) and implemented these within i2b2. There was a good sidebar conversation with Shawn Murphy of the role of the core i2b2 team in supporting these new developments.
Keith Marsolo described talked about chart review with i2b2 and the use of i2b2 as a registry (for liver transplant). He too ran a live demonstration.
The onco-i2b2 project was described by our colleagues from Unversity of Pavia.
Brian Wilson described a new data exchange infrastructure and message queues to support LIMS of various stripes as well as genomic annotation pipelines. He also bravely demonstrated his listener dipatching/queueing functionality.
There were then a flurry of very technical discussions which engaged the developer and user community in detail. By mid morning on Wednesday, we started to discuss the relevance the of the SMART project to i2b2 which independently is generating a large developer community.
Weber, Churchill, Kohane, Mendis, Murphy
Discussed how to augment the payload of SHRINE (for v2) to include 1 by 1 viewable limited data sets rather than merely aggregate counts to enable subject recruitment across multiple sites.
Guergana demonstrated a prototype webservice for cTAKES (the NLP pipeline) which will be available soon.
Murphy, Kohane, Churchill, Simons, Weber, Mendis
Reviewed the differences between the XML payloads of i2b2 and the payloads of SHRINE and what additional calls to the underlying i2b2 instance would be required to support patient-by-patient limited data set access across i2b2 instances.
Murphy, Kohane, Churchill, Weber, Simons, Bickel, Mendis,
Discussed the next set of functionalities in SHRINE, the distributed query system across i2b2. Right now in production it returns aggregate numbers of patients meeting search criteria. There are several additional next steps that will be reviewed at the SHRINE (6/29-6/30—Keynote day 1 David Blumenthal, Keynote day 2 Patrick Taylor) meeting following the AUG meeting in Boston.
