CORE 2 (Driving Biology Projects) HIGH LEVEL DESCRIPTION Notwithstanding their current utility, i2b2 and SHRINE lack the ability to perform temporal analyses which are needed to discover seasonal trends, cause-and-effect relationships, time dependencies of treatment options, and temporal effects of treatments. As an example, it would be obviously useful to have a temporal analytic i2b2 cell that would allow an invesfigator to issue an i2b2 query that asks """"""""find all patients with diabetes and retinopathy, where the diabetes was noted before the retinopathy."""""""" Currently, the i2b2 Workbench can only identify the patients with both diagnoses but not the sequence in which they were noted. To do othenwise requires a SQL-sawy applications programmer and creates a serious bottleneck and tough workarounds for clinical researchers (unassisted by programmers) seeking to investigate comparative effectiveness, or pharmacovigilance where the ability to readily dissect out abstractions of episodes and abstractions of precedence and overiapping and quantifications thereof becomes essential. Prior efforts in this domain fall Into two broad categories: creation of a sophisticated internal database representation of time (including time intervals), with an equally sophisticated temporal query language and database management system and use of a simple, time-stamp-based database architecture coupled with a sophisticated temporal query language. (27, 28). The goal of this proposal is to achieve a significant breadth of temporal expressiveness using existing time-stamped databases (29). In working toward this goal, we leverage work over the last twenty years that permits a pragmatic hybrid ofthe two approaches mentioned above.

Agency
National Institute of Health (NIH)
Institute
National Library of Medicine (NLM)
Type
Specialized Center--Cooperative Agreements (U54)
Project #
5U54LM008748-09
Application #
8382735
Study Section
Special Emphasis Panel (ZRG1-BST-K)
Project Start
Project End
Budget Start
2012-09-15
Budget End
2013-09-14
Support Year
9
Fiscal Year
2012
Total Cost
$732,709
Indirect Cost
$186,657
Name
Brigham and Women's Hospital
Department
Type
DUNS #
030811269
City
Boston
State
MA
Country
United States
Zip Code
02115
Murphy, Shawn N; Avillach, Paul; Bellazzi, Riccardo et al. (2017) Combining clinical and genomics queries using i2b2 - Three methods. PLoS One 12:e0172187
Hundemer, Gregory L; Baudrand, Rene; Brown, Jenifer M et al. (2017) Renin Phenotypes Characterize Vascular Disease, Autonomous Aldosteronism, and Mineralocorticoid Receptor Activity. J Clin Endocrinol Metab 102:1835-1843
Nanba, Kazutaka; Vaidya, Anand; Williams, Gordon H et al. (2017) Age-Related Autonomous Aldosteronism. Circulation 136:347-355
Luo, Yuan; Uzuner, Özlem; Szolovits, Peter (2017) Bridging semantics and syntax with graph algorithms-state-of-the-art of extracting biomedical relations. Brief Bioinform 18:160-178
Bigdeli, T B; Ripke, S; Peterson, R E et al. (2017) Genetic effects influencing risk for major depressive disorder in China and Europe. Transl Psychiatry 7:e1074
Luo, Yuan; Szolovits, Peter (2016) Efficient Queries of Stand-off Annotations for Natural Language Processing on Electronic Medical Records. Biomed Inform Insights 8:29-38
Castro, V M; Kong, S W; Clements, C C et al. (2016) Absence of evidence for increase in risk for autism or attention-deficit hyperactivity disorder following antidepressant exposure during pregnancy: a replication study. Transl Psychiatry 6:e708
Lin, Chen; Dligach, Dmitriy; Miller, Timothy A et al. (2016) Multilayered temporal modeling for the clinical domain. J Am Med Inform Assoc 23:387-95
Ananthakrishnan, Ashwin N; Cagan, Andrew; Cai, Tianxi et al. (2016) Identification of Nonresponse to Treatment Using Narrative Data in an Electronic Health Record Inflammatory Bowel Disease Cohort. Inflamm Bowel Dis 22:151-8
Corey, Kathleen E; Kartoun, Uri; Zheng, Hui et al. (2016) Using an Electronic Medical Records Database to Identify Non-Traditional Cardiovascular Risk Factors in Nonalcoholic Fatty Liver Disease. Am J Gastroenterol 111:671-6

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