Ph. D. in Biological Engineering, 2014
Massachusetts Institute of Technology, Cambridge MA
B. S. in Biochemistry and B. A. in Economics, 2008
Case Western Reserve University, Cleveland OH
Minor in Chemistry; graduated summa cum laude with 4.0 GPA
Ayersville High School, Defiance OH
Graduated valedictorian with 4.0 GPA
- Statistics: in particular, information theory and Bayesian theory with an appreciation for the importance of understanding the assumptions behind the techniques being applied
- Programming: Matlab, Scala, and C#; proficiency in Bash and Python
- Computers: Windows and Linux
Senior Scientist, Merck, 2014-present
- Pharmacokinetics and pharmacodynamics
Graduate Researcher, Bruce Tidor lab, Massachusetts Institute of Technology, 2009-2014
- Developed a novel method for computing the probability distribution on a set of discrete topologies according to a set of data using linearization as an approximation technique, showing that it gave a comparable answer to a gold-standard Monte Carlo method, while taking far less computational resources
- Demonstrated that linearization was an effective technique for approximating parameter uncertainty for the purpose of optimal experimental design, showing in a computational scenario, that the parameters of a biological network could be recovered from noisy data using a handful of optimally chosen experiments
- Developed and maintained the laboratory’s systems biology toolbox written in Matlab, preforming simulation, parameter fitting, and statistical analysis of parameter and topology uncertainty.
- Managed a 2000-core high performance computing cluster
Teaching Assistant, Biological Engineering Department, Massachusetts Institute of Technology, 2009
- In collaboration with co-TA Tim Curran, re-wrote the class tutorials, homework instructions, and implementation assignments of 20.420 Biomolecular Kinetics and Cellular Dynamics class, which by both the student and instructor accounts, greatly improved the learning to effort ratio of the out-of-class assignments, an effect that persists year after year as the material is reused by subsequent TAs
Undergraduate Researcher, Richard W Hanson lab, Case Western Reserve University, 2005-2008
- Responsible for developing and testing hypotheses concerning the PEPCK-Cmus mice, a strain of super-active mice created in the lab
- Applied for and received funding for my own research project studying the effect of the transgene on metabolism and diabetes
David R Hagen and Bruce Tidor, “A Computational Experimental Design Method for Efficiently Reducing Topology Uncertainty”, unsubmitted.
David R Hagen and Bruce Tidor, “Efficient Bayesian Estimates for Discrimination among Topologically Different Systems Biology Models“, Molecular BioSystems, 2015.
David R Hagen, “Parameter and Topology Uncertainty for Optimal Experimental Design“, MIT Doctoral Thesis, 2014.
David R Hagen, Jacob K White, and Bruce Tidor, “Convergence in parameters and predictions using computational experimental design“, Interface Focus, 2013.
David R Hagen, Joshua F Apgar, David K Witmer, Forest M White, Bruce Tidor, “Reply to Comment on ‘Sloppy models, parameter uncertainty, and the role of experimental design’“, Molecular BioSystems, 2011.
Parvin Hakimi, Jianqi Yang, Gemma Casadesus, Duna Massillon, Fatima Tolentino-Silva, Colleen K Nye, Marco E Cabrera, David R Hagen, Christopher B Utter, Yacoub Baghdy, David H Johnson, David L Wilson, John P Kirwan, Satish C Kalhan, Richard W Hanson, “Overexpression of the cytosolic form of phosphoenolpyruvate carboxykinase (GTP) in skeletal muscle repatterns energy metabolism in the mouse“, Journal of Biological Chemistry, 2007.
David R Hagen, “Know what You Know”, ICBP MIT, 2013.
David R Hagen, “If at First you Don’t Succeed, Try Experimental Design”, ICBP Mathematics, 2012.
David R Hagen, “If at First you Don’t Succeed, Try Experimental Design”, IEEE EMBC, 2011.
David R Hagen, “PEPCK-C over-expression in muscle repatterns energy metabolism in mice”, Diabetes Association of Greater Cleveland, 2007.