Tuesday, June 23, 2015

i2b2 AUG Annual Meeting

Impressive opening session where we heard from a large set of users of i2b2 including (forgive me for selective memory and the Boston folks explicitly excluded):

  • at UNC/South Carolina and regionally
  • lots of work on biobanking
  • ACT network across CTSAs
  • Cancer Centers (e.g. the Kimmel Cancer Center)
  • University of Alabama (part of SHRINE) and Cimino
  • Deborah Batson from Colorado ensuring that good stuff is available to local researchers.
  • Microbiome data integrated with i2b2 in Germany. R Script.
  • October 9th- European i2b2 AUG meeting in Leicester, UK
  • TriNetX engaged in several productive contracts.
  • San Antonio (part of a PCORI) working on closing the gap between biostatistics and 
  • UC Davis, UCSF part of a large 
  • Autoimmune Foundation aligning multiple small groups.
  • Dan Baker at EPIC gave a lot of encouragement about collaboration and integration with i2b2
  • Adding statistical capabilities to the web client
  • Genomic full sequence integration with EHR
  • University of Florida (70+ papers published using i2b2)
  • Russ W. from Kansas spoke about a wide range of applications and Cerner integration.

Doug MacFadden gave an update on i2b2 SHRINE.

Nich demonstrated real-time 21-site (yes, twenty-one clinical sites) responding to queries. He also demonstrated vetting recruited patients through a new set of i2b2 plugins.

Ken talked about involving patients and recruiting patients with SMART apps.

Getting ready for the meeting





Shawn Murphy kicks off i2b2 AUG meeting

Monday, June 9, 2014

Cardiovascular Research Grid

I just learned of an interesting research effort and toolkit called the Cardiovascular Research Grid. It’s quite extensive in the data types it supports and includes i2b2 for integration with clinical data and the Globus toolkit for funneling genomic data to the Galaxy genomics analytic platform. Many other tools for imaging data and its analysis as well. Quite impressive.

Sunday, April 6, 2014

Success with Transmart at Pharma

Our i2b2 cousin-community, Transmart, is continuing to thrive: See http://ubm.io/1lEWEg9 

Saturday, February 1, 2014

i2b2 evaluation

John Bickel shared an interesting paper in which he and his colleagues investigated the use of i2b2 for cohort identification.

1/15/2014: All Hands Meeting:

Tim Miller, PhD (CS) from Guergana’s group presented his work on extracting and representing temporal relations from narrative text. And he focused on the “CONTAINS” relation which is useful in multiple ways which he illustrated across several use cases.


December 12th, 2013
Three projects reviewed:
  • Mortality and extra intestinal cancers in primary sclerosing cholangits (PSC) and inflammatory bowel disease.
  • Vitamin D and C. Diff infections
  • Thromboprophylaxis in IBD (post-hospitalization)