Posts for the month of October 2011

AMIA 2011: Nursing Flowsheets data and the wild west of terminology

Like a number of other CTSA sites, we're Using I2B2 in our HERON research data respository. The original domain of I2B2 was genome/phenome integration and personalized medicine. Genomic stuff is on our long-term radar, but one of our earliest wins has been mining the vast amount of data (~400M observations as of our latest release) recorded by nurses and other practitioners in flowsheets in our EMR.

Height, weight, and BMI are quite common inclusion/exclusion criteria for clinical trials, and those aren't available in the term hierarchy that comes with I2B2 out of the box.

It's been a big challenge because unlike diagnoses with ICD9 codes and procedures with CPT codes, the MedicalTerminologyMarketplace has no widespread norms for flowsheets.

We're presenting some results in Washington D.C. on Wednesday at AMIA 2011:

Stay tuned to KUBMIPresentations for presentation materials.

p.s. I'm new to AMIA. As a long-time Web guy, there's a bit of culture shock: the conference program only seems to be available as a big hunk of PDF or a goofy mobile flash thing, and the "Join the conversation on twitter" box inside gives the hash tag as AMIA2011#, with the hash at the end. Chuckle. And no open-access to the full text of the article. Sigh.

Perry is here with data through September 2011

This month, the release of our HERON research data repository honors Perry Lake for our regular monthly refresh of the data.

Join us at the Frontiers Clinical/Translational Informatics Clinic for full demonstration and discussion. We have it bi-weekly in 1040 Dykes Library from 4 -5 pm. Next workshop will be on Nov 1st, 2011.

The HERON repository contains approximately 551 million real observations from the hospital and clinics:

Observation Patients Source Go-Live Snapshot Issues
Demographics 15.4M 1.8728M
KUH Billing (O2 via SMS) 1980s Sep 2011 various*
UKP Billing 2000 Sep 2011
6.4K 6.4K Frontiers participant registry Jun 2009 Sep 2011
Diagnoses (IDC9) 16.9M 564K
KUH/O2/Epic Nov 2007 Sep 2011 various*
UKP Billing 2000 Sep 2011
Medications 25.6M 93.7K
KUH/O2/Epic Nov 2007 Sep 2011 various*
Nursing Observations 396.7M ?
KUH/O2/Epic Nov 2007 Sep 2011 various*
Lab Results 66.2M 237K
KUH/O2/Epic Nov 2003 Sep 2011 various*
Procedures (CPT) 9.02M 519K
KUH/O2/Epic Nov 2007 Sep 2011
Specimen 22.2K 2.4K
KUMC Bio Specimen Repository Apr 1996 Sep 2011
Death Index
24K 24k KUH Hospital Data Nov 2007 Sep 2011
178K 178k Social Security Administration Apr 1996 Jan 1962
All 551M

Beta Disclaimer

We are providing this early access to obtain feedback from you, the research community. While we are actively working on validating the data loaded into the system with hospital and clinic technical staff, there may be problems with our translation of data from our source systems (HospitalEpicSource and ClinicIdxSource) into HERON. Please email us at if you discover information you believe may be erroneous. We are actively working on enhancing the types of data included. Stay tuned to our roadmap to track progress toward upcoming releases.

Various Issues Still Apply

Keep in mind the issues noted in the original HERON beta notice, including:

Problems/Defects/Issues Addressed in this Release

no major issues.

Outstanding Problems/Defects/Issues

No results