DBMI Publications

Lu, S., Mandava, G., Yan, G., and Lu, X (2016) An exact algorithm for finding cancer driver somatic genome alterations: the weighted mutually exclusive maximum set cover problem.  Algorithm for Molecular Biology 11:1, DOI: 10.1186/s13015-016-0073-9   PMCID: PMC4855522
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
Jonathan Lazar, Julio Abascal, Simone Barbosa, Jeremy Barksdale, Batya Friedman, Jens Grossklags, Jan Gulliksen, Jeff Johnson, Tom McEwan, Loïc Martínez-Normand, Wibke Michalk, Janice Tsai, Gerrit van der Veer, Hans von Axelson, Ake Walldius, Gill Whitney, Marco Winckler, Volker Wulf, Elizabeth F. Churchill, Lorrie Cranor, Janet Davis, Alan Hedge, Harry Hochheiser, Juan Pablo Hourcade, Clayton Lewis, Lisa Nathan, Fabio Paterno, Blake Reid, Whitney Quesenbery, Ted Selker and Brian Wentz (2016), "Human–Computer Interaction and International Public Policymaking: A Framework for Understanding and Taking Future Actions", Foundations and Trends® Human–Computer Interaction: Vol. 9: No. 2, pp 69-149. http://dx.doi.org/10.1561/1100000062
N. Batmanghelich, A. Saeedi, K. Narasimhan, S. Gershman, 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
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
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
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
Stolovitzky, G., Hill, S., Heiser, L, Lu, X, Jiang, X, et al.  (2016) Inferring causal molecular networks: empirical assessment through a community-based effort.  Nature Methods. 13, 310–318 PMID: 26901648 PMCID: PMC4854847  
Hochheiser, H., Ning, Y., Hernandez, A., Horn, J. R., Jacobson, R., & Boyce, R. D. (2016). Using Nonexperts for Annotating Pharmacokinetic Drug-Drug Interaction Mentions in Product Labeling: A Feasibility Study. JMIR Research Protocols, 5(2), e40. http://doi.org/10.2196/resprot.5028 PMID: 27066806 PMCID: PMC4844909
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 Research. 2016 Mar 1;76(5):1031-43. PMID:26676749.
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