David Murrugarra
I am an associate professor in the Department of Mathematics at the University of Kentucky. My research is in Mathematical Biology with an emphasis in Systems Biology and Computational Biology. I got my PhD in Mathematics from Virginia Tech. I was a postdoc in the School of Mathematics at Georgia Tech before moving to UK in 2014. For more information visit my webpage.
I develop computational tools for modeling, analysis, and control of gene regulatory networks. I am also developing efficient methods for optimal control of large probabilistic models using techniques from Markov decision processes and reinforcement learning.
I am also working in the development of methods for the computational prediction of RNA secondary structure using machine learning techniques. For more information, including a list of publications, please visit my personal webpage.
I am a co-organizer of the UK Working Group on Ethics, Equity, Inclusion, and Justice in the Mathematical Sciences.
I am in the Applied and Computational Mathematics group. We run a weekly seminar, see details here.
- "Evolution of Cellular Differentiation: From Hypotheses to Models."Trends in ecology & evolution36.1(2021):49-60.Details. Full text
- "Mathematical modeling of the Candida albicans yeast to hyphal transition reveals novel control strategies."PLoS computational biology17.3(2021):e1008690.Details. Full text
- "Modeling the Pancreatic Cancer Microenvironment in Search of Control Targets."Bulletin of mathematical biology83.11(2021):115.Details. Full text
- "A Near-Optimal Control Method for Stochastic Boolean Networks."Letters in biomathematics7.1(2020):67-80.Details.
- "Control of Intracellular Molecular Networks Using Algebraic Methods."Bulletin of mathematical biology82.1(2019):2.Details. Full text
- "Transcriptional correlates of proximal-distal identify and regeneration timing in axolotl limbs."Comparative biochemistry and physiology. Toxicology & pharmacology : CBP208.(2018):53-63.Details. Full text
- "Conditioning and Robustness of RNA Boltzmann Sampling under Thermodynamic Parameter Perturbations."Biophysical journal113.2(2017):321-329.Details. Full text
- "Identification of control targets in Boolean molecular network models via computational algebra."BMC systems biology10.1(2016):94.Details. Full text
- "Molecular network control through boolean canalization."EURASIP journal on bioinformatics & systems biology2015.1(2015):9.Details. Full text
- "Stabilizing gene regulatory networks through feedforward loops."Chaos (Woodbury, N.Y.)23.2(2013):025107.Details. Full text
- "Modeling stochasticity and variability in gene regulatory networks."EURASIP journal on bioinformatics & systems biology2012.1(2012):5.Details. Full text
- "Regulatory patterns in molecular interaction networks."Journal of theoretical biology288.(2011):66-72.Details. Full text
- "A mathematical framework for agent based models of complex biological networks."Bulletin of mathematical biology73.7(2011):1583-602.Details. Full text
- "Estimating Propensity Parameters Using Google PageRank and Genetic Algorithms."Frontiers in neuroscience10.(0):513.Details. Full text