Gregory Cooper, MD, PhD

Research Interests: 
  • Application of decision theory, probability theory, Bayesian statistics, and artificial intelligence to biomedical informatics research problems 
  • Causal modeling and discovery from clinical and high-throughput molecular data
  • Computer-aided medical diagnosis and prediction
  • Machine-learning approaches to improving patient safety
  • Biosurveillance of disease outbreaks
Appointments and Positions: 
  • Professor of Biomedical Informatics
  • Secondary faculty appointments in Intelligent Systems, Computational and Systems Biology, Computer Science and Information Sciences
  • Vice Chair, Department of Biomedical Informatics
Publications: 

Cooper GF, Bahar I, Becich MJ, Benos PV, Berg J, Espino JU, Jacobson RC, Kienholz M, Lee AV, Lu X, Scheines R, Center for Causal Discovery team. The Center for causal discovery of biomedical knowledge from Big Data. Journal of the American Medical Informatics Association 2015 Jul 2. pii: ocv059. doi: 10.1093/jamia/ocv059. [Epub ahead of print]  PMID: 26138794

Batal I, Cooper G, Fradkin D, Harrison J, Moerchen F, Hauskrecht M. An efficient pattern mining approach for event detection in multivariate temporal data. The Journal of Knowledge and Information Systems (2015) 1-36 [PubMed – in progress].

Cooper GF, Villamarin R, Tsui FC, Millett N, Espino J, Wagner MM. A method for detecting and characterizing outbreaks of infectious disease from clinical reports. Journal of Biomedical Informatics (2014).   Aug 30. pii: S1532-0464(14)00192-0. doi: 10.1016/j.jbi.2014.08.011. [Epub ahead of print] PMID:25181466 PMC4441330

Jiang X, Cai B, Xue D, Lu X, Cooper GF, Neapolitan RE. A comparative analysis of methods for predicting clinical outcomes using high-dimensional genomic datasets. Journal of the American Medical Informatics Association (2014). Oct;21(e2):e312-9. doi: 10.1136/amiajnl-2013-002358. Epub 2014 Apr 15.  PMID: 24737607 PMC4173174

David J. Montefusco, Lujia Chen, Nabil Matmati, Songjian Lu, Benjamin Newcomb, Gregory F. Cooper, Yusuf A. Hannun, and Xinghua Lu.  Science Signaling, 6(299): p. rs14 [DOI: 10.1126/scisignal.2004515] http://stke.sciencemag.org/cgi/content/full/sigtrans;6/299/rs14

Villamarin R, Cooper G, Wagner, MM, Tsui FC, Espino JU.  A method for estimating from thermometer sales the incidence of diseases that are symptomatically similar to Influenza.  J Biomed Inform. 2013 Jun;46(3):444-57. (doi: 10.1016/j.jbi.2013.02.003. Epub 2013 Mar 14.) PubMed PMID:  23501015.  PMCID:PMC in Process.

Ferreira A, Cooper GF, Visweswaran S. Decision path models for patient-specific modeling of patient outcomes.  In:Proceedings of the Annual Symposium of the American Medical Informatics Association (2013) 413-21. PMID: 24551347. PMCID: PMC3900188

Hennings-Yeomans PH, Cooper GF. Improving the prediction of clinical outcomes from genomic data using multiresolution analysis. IEEE/ACM Transactions on Computational Biology and Bioinformatics 9 (2012) 1442-1450. PMID: 22641708

Sverchkov Y, Visweswaran S, Clermont G, Hauskrecht M, Cooper GF. A multivariate probabilistic method for comparing two clinical datasets. In: Proceedings of the ACM International Health Informatics Symposium (2012) 795-800.

Batal I, Cooper G, Hauskrecht M. A Bayesian scoring technique for mining predictive and non-spurious rules. Machine Learning and Knowledge Discovery in Databases 7524 (2012) 260-276.

Tsui F-C, Wagner MM, Cooper G, Que J, Harkema H,  Dowling J, Sriburadej T,  Li Q, Espino JU, Voorhees R.  Probabilistic case detection for disease surveillance using data in electronic medical records.  Online J Public Health Inform.  2011 Dec;3(3) Epub 2011 Dec 22.  PubMed PMID: 23569615.  PMCID:PMC3615792.

Wagner M, Tsui F, Cooper G, Espino J, Harkema H, Levander J, Villamarin R, Voorhees R, Millett N, Keane C, Dey A, Razdan M, Hu Y, Tsai M, Brown S, Lee BY, Gallagher A, Potter M. Probabilistic, Decision-theoretic Disease Surveillance and Control. Online Journal of Public Health Informatics 3 2011 Dec;3(3) Epub 2011 Dec 22.  PubMed PMID:  23569617.  PMCID:PMC3615794.

Jiang X, Wallstrom G, Cooper GF, Wagner MM. Bayesian prediction of an epidemic curve. J Biomed Inform. 2009 Feb;42(1):90-9. Epub 2008 Jun 13. PMID: 18593605.

Jiang X, Cooper GF.  A Bayesian Network Model for Spatial Event Surveillance.  Accepted by International Journal of Approximate Reasoning January 2009 (to appear).

Jiang X, Cooper GF. Modeling the Temporal Trend of the Daily Severity of an Outbreak using Bayesian Networks. In: Holmes DE, Jain LC, editors. Innovations in Bayesian Networks of Studies in Computational Intelligence. NY: Springer-Verlag, 2008.

Hogan WR, Cooper GF, Wallstrom GL, Wagner MM, Depinay JM. The Bayesian aerosol release detector: an algorithm for detecting and characterizing outbreaks caused by an atmospheric release of Bacillus anthracis. Stat Med. 2007 Dec 20;26(29):5225-52. PMID: 17948918.

Current Research Projects and Collaborations

Dr. Cooper’s past and current research involves the application of decision theory, probability theory, machine learning, Bayesian statistics, and artificial intelligence to biomedical informatics research problems. He has been investigating those topic areas for the past 25 years and has published over 140 peer-reviewed papers. He is currently involved in the following research projects:

 

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