DBMI Publications

Day RS. Planning clinically relevant biomarker validation studies using the “number needed to treat” concept. Journal of Translational Medicine. 2016;14:117. doi:10.1186/s12967-016-0862-4. PMCID: PMC4857295.
Naeini Pakdaman M, Cooper GF. Binary classifier calibration using an ensemble of linear trend estimation. In: Proceedings of the 2016 SIAM International Conference on Data Mining (2016) May;2016:261-269. doi: 10:1137/1.9781611974348.30.  PMID: 28357159 PMCID: PMC5367639
Hill SM, et al. Inferring causal molecular networks: Empirical assessment through a community-based effort. Nature Methods (2016) Apr; 13(4):310-318. doi: 10.1038/nmeth.3773. PMID: 26901648 PMCID: PMC4854847
Hochheiser H, Ning Y, Hernandez A, Horn, JR, Jacobson R, Boyce RD. Using Nonexperts for Annotating Pharmacokinetic Drug-Drug Interaction Mentions in Product Labeling: A Feasibility Study. JMIR Res Protoc. 2016 Apr 11;5(2):e40. doi: 10.2196/resprot.5028. PMID: 27066806 PMCID: PMC4844909.
Kim Y, Ge Y, Tao C, Zhu J, Chapman AB, Torres VE, Yu ASL, Mrug M, Bennett WM, Flessner MF, Landsittel DP, Bae KT, and for the Consortium for Radiologic Imaging Studies of Polycystic Kidney Disease (CRISP). Automated segmentation of kidneys from MR images in subjects with autosomal dominant polycystic kidney disease. Clinical Journal of the American Society of Nephrology. 2016;11(4):576-584. PMID:  26797708 PMCID: PMC4822671 DOI: 10.2215/CJN.08300815
Wright ES, Vetsigian KH. Inhibitory interactions promote frequent bistability among competing bacteria. Nat Commun. 2016 Apr 21;7:11274. doi: 10.1038/ncomms11274. PMID: 27097658. PMCID: PMC4844671.
Batmanghelich N, Saeedi A, Narasimhan K, Gershman S. Nonparametric Spherical Topic Modeling with Word Embeddings. Proceedings of the 54th Annual Meeting of the Association for Computational Linguistics (ACL), pp 537-542, 2016. arXiv:1604.00126.
McCray AT, Glaser J, Koppel R, Langlotz CP, Silverstein J. Health IT vendors and the academic community: The 2014 ACMI debate. J Biomed Inform. 2016 Apr;60:365-75. doi: 10.1016/j.jbi.2016.03.003. Epub 2016 Mar 8. PMID: 26968349
Pineda AL, Ogoe HA, Balasubramanian JB, Rangel Escareño C, Visweswaran S, Herman JG, Gopalakrishnan V. On Predicting lung cancer subtypes using 'omic' data from tumor and tumor-adjacent histologically-normal tissue. BMC Cancer. 2016 Mar 4;16:184. doi: 10.1186/s12885-016-2223-3. PMID:  26944944  PMCID:  PMC4778315  DOI: 10.1186/s12885-016-2223-3.
Concha-Benavente F, Srivastava RM, Trivedi S, Lei Y, Chandran U, Seethala RR, Freeman GJ, Ferris RL. Identification of the Cell-Intrinsic and -Extrinsic Pathways Downstream of EGFR and IFNy That Induce PD-L1 Expression in Head and Neck Cancer. Cancer Res. 2016 Mar 1;76(5):1031-43. doi: 10.1158/0008-5472.CAN-15-2001.  PMID:26676749. PMCID: PMC4775348.
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