Gregory Cooper

Cai C, Cooper GF, Lu KN, Ma X, Xu S, Zhao Z, Chen X, Xue Y, Lee AV, Clark N, Chen V, Lu S, Chen L, Yu L, Hochheiser HS, Jiang X, Wang QJ, Lu X. Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference. PLoS Comput Biol. 2019 Jul;15(7):e1007088. doi: 10.1371/journal.pcbi.1007088. PubMed PMID: 31276486; PMCID: PMC6650088.
King AJ, Cooper GF, Hochheiser H, Clermont G, Hauskrecht M, Visweswaran S. Using Machine Learning to Predict the Information Seeking Behavior of Clinicians Using an Electronic Medical Record System. AMIA Annu Symp Proc. 2018;2018673-682. PubMed PMID: 30815109; PMCID: PMC6371238.
Jabbari F, Visweswaran S, Cooper GF. Instance-Specific Bayesian Network Structure Learning. Proc Mach Learn Res. 2018 Sep;72169-180. PubMed PMID: 30775723; PMCID: PMC6376975.
Andrews B, Ramsey J, Cooper GF. Scoring Bayesian Networks of Mixed Variables. Int J Data Sci Anal. 2018 Aug;6(1):3-18. doi: 10.1007/s41060-017-0085-7. PubMed PMID: 30140730; PMCID: PMC6101981.
Naeini MP, Cooper GF. Binary Classifier Calibration Using an Ensemble of Piecewise Linear Regression Models. Knowl Inf Syst. 2018 Jan;54(1):151-170. doi: 10.1007/s10115-017-1133-2. PubMed PMID: 29606784; PMCID: PMC5875942.
Jabbari F, Ramsey J, Spirtes P, Cooper G. Discovery of Causal Models that Contain Latent Variables through Bayesian Scoring of Independence Constraints. Mach Learn Knowl Discov Databases. 2017 Sep;2017142-157. doi: 10.1007/978-3-319-71246-8_9. PubMed PMID: 29520396; PMCID: PMC5836552.
Gilbert JR, Taylor GM, Losee JE, Mooney MP, Cooper GM. Molecular Analysis of Gli3, Ihh, Rab23, and Jag1 in a Rabbit Model of Craniosynostosis: Likely Exclusion as the Loci of Origin. Cleft Palate Craniofac J. 2018 Mar;55(3):375-382. doi: 10.1177/1055665617739001. PubMed PMID: 29437519.
Ding MQ, Chen L, Cooper GF, Young JD, Lu X. Precision Oncology beyond Targeted Therapy: Combining Omics Data with Machine Learning Matches the Majority of Cancer Cells to Effective Therapeutics. Mol Cancer Res. 2018 Feb;16(2):269-278. doi: 10.1158/1541-7786.MCR-17-0378. PubMed PMID: 29133589; PMCID: PMC5821274.
King AJ, Hochheiser H, Visweswaran S, Clermont G, Cooper GF. Eye-tracking for clinical decision support: A method to capture automatically what physicians are viewing in the EMR. AMIA Jt Summits Transl Sci Proc. 2017;2017512-521. PubMed PMID: 28815151; PMCID: PMC5543363.
Naeini MP, Cooper GF. Binary Classifier Calibration Using an Ensemble of Linear Trend Estimation. Proc SIAM Int Conf Data Min. 2016 May;2016261-269. doi: 10.1137/1.9781611974348.30. PubMed PMID: 28357158; PMCID: PMC5367639.
Manolio TA, Fowler DM, Starita LM, Haendel MA, MacArthur DG, Biesecker LG, Worthey E, Chisholm RL, Green ED, Jacob HJ, McLeod HL, Roden D, Rodriguez LL, Williams MS, Cooper GM, Cox NJ, Herman GE, Kingsmore S, Lo C, Lutz C, MacRae CA, Nussbaum RL, Ordovas JM, Ramos EM, Robinson PN, Rubinstein WS, Seidman C, Stranger BE, Wang H, Westerfield M, Bult C. Bedside Back to Bench: Building Bridges between Basic and Clinical Genomic Research. Cell. 2017 Mar 23;169(1):6-12. doi: 10.1016/j.cell.2017.03.005. PubMed PMID: 28340351; PMCID: PMC5511379.
Naeini MP, Cooper GF. Binary Classifier Calibration using an Ensemble of Near Isotonic Regression Models. Proc IEEE Int Conf Data Min. 2016 Dec;2016360-369. doi: 10.1109/ICDM.2016.0047. PubMed PMID: 28316511; PMCID: PMC5351887.
Lu S, Cai C, Yan G, Zhou Z, Wan Y, Chen V, Chen L, Cooper GF, Obeid LM, Hannun YA, Lee AV, Lu X. Signal-Oriented Pathway Analyses Reveal a Signaling Complex as a Synthetic Lethal Target for p53 Mutations. Cancer Res. 2016 Dec 1;76(23):6785-6794. doi: 10.1158/0008-5472.CAN-16-1740. PubMed PMID: 27758891; PMCID: PMC5165695.
Hauskrecht M, Batal I, Hong C, Nguyen Q, Cooper GF, Visweswaran S, Clermont G. Outlier-based detection of unusual patient-management actions: An ICU study. J Biomed Inform. 2016 Dec;64211-221. doi: 10.1016/j.jbi.2016.10.002. PubMed PMID: 27720983; PMCID: PMC5207478.
Sverchkov Y, Cooper GF. A Bayesian Approach for Identifying Multivariate Differences Between Groups. Adv Intell Data Anal. 2015 Oct;9385275-285. doi: 10.1007/978-3-319-24465-5_24. PubMed PMID: 27069983; PMCID: PMC4825814.
Batal I, Cooper G, Fradkin D, Harrison J, Moerchen F, Hauskrecht M. An Efficient Pattern Mining Approach for Event Detection in Multivariate Temporal Data. Knowl Inf Syst. 2016 Jan;46(1):115-150. doi: 10.1007/s10115-015-0819-6. PubMed PMID: 26752800; PMCID: PMC4704806.
Naeini MP, Cooper GF, Hauskrecht M. Binary Classifier Calibration Using a Bayesian Non-Parametric Approach. Proc SIAM Int Conf Data Min. 2015;2015208-216. doi: 10.1137/1.9781611974010.24. PubMed PMID: 26613068; PMCID: PMC4657569.
Cooper GF, Bahar I, Becich MJ, Benos PV, Berg J, Espino JU, Glymour C, 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. J Am Med Inform Assoc. 2015 Nov;22(6):1132-6. doi: 10.1093/jamia/ocv059. PubMed PMID: 26138794; PMCID: PMC5009908.
Visweswaran S, Ferreira A, Ribeiro GA, Oliveira AC, Cooper GF. Personalized Modeling for Prediction with Decision-Path Models. PLoS One. 2015;10(6):e0131022. doi: 10.1371/journal.pone.0131022. PubMed PMID: 26098570; PMCID: PMC4476684.
Naeini MP, Cooper GF, Hauskrecht M. Obtaining Well Calibrated Probabilities Using Bayesian Binning. Proc Conf AAAI Artif Intell. 2015 Jan;20152901-2907. PubMed PMID: 25927013; PMCID: PMC4410090.
King AJ, Cooper GF, Hochheiser H, Clermont G, Visweswaran S. Development and Preliminary Evaluation of a Prototype of a Learning Electronic Medical Record System. AMIA Annu Symp Proc. 2015;20151967-75. PubMed PMID: 26958296; PMCID: PMC4765593.
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. J Am Med Inform Assoc. 2014 Oct;21(e2):e312-9. doi: 10.1136/amiajnl-2013-002358. PubMed PMID: 24737607; PMCID: PMC4173174.
Avali VR, Cooper GF, Gopalakrishnan V. Application of Bayesian logistic regression to mining biomedical data. AMIA Annu Symp Proc. 2014;2014266-73. PubMed PMID: 25954328; PMCID: PMC4419893.

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