Elena S. Dimitrova

 

 

 

PERSONAL DATA

                           Associate Professor

                           Faculty Scholar in the School of Health Research

                           O-303 Martin Hall

                           Department of Mathematical Sciences

                           Clemson University

                           Clemson, SC 29634

                           864/656-1524

                           edimit@clemson.edu

                           http://edimit.people.clemson.edu/  

                                                                       

EDUCATION

Ph.D., Virginia Tech, 2006, Mathematics

M.S., Virginia Tech, 2003, Mathematics

B.A., American University in Bulgaria, 2001, Computer Science

 

PROFESSIONAL EXPERIENCE 

Clemson University, April 2015-, Faculty Scholar, School of Health Research

Clemson University, August 2012-, Associate Professor of Mathematical Sciences      

Clemson University, August 2006-July 2012, Assistant Professor of Mathematical Sciences

 

PUBLICATIONS  

Dimitrova, E.S., Shapiro, L., Laubenbacher, R. (2017). The innate immune response to ischemic injury: a multiscale modeling perspective. Submitted to BMC Systems Biology.

Ha, S., Hoops, S., Dimitrova, E.S., Tyler, B., Setubal, J., McDowell, J., Glazebrook, J., Katagiri, F., Hillmer, R., Hinkelmann, F., McGraw, M., Basu, M., Laubenbacher, R. (2017). PlantSimLab, a mathematical modeling platform for experimentalists. Submitted to Bioinformatics.

Dimitrova, E.S., He, Q., Robbiano, L., Stigler, B. (2017). Small Gröbner fans of ideals of points. Journal of Symbolic Computation. Accepted.

Dimitrova, E.S. (2017). Discrete-Time Dynamical Systems. In “Handbook of Discrete and Combinatorial Mathematics,” 2nd Ed, Ed. Douglas Shier. CRC Press.

Dimitrova, E.S. and Laubenbacher, R. (2017). Boolean models in immunology. In “System Immunology: An Introduction to Modeling Methods for Scientists,” Eds. Das, J. and Jayaprakash, C. Taylor & Francis Group.

Murrugarra, D. and Dimitrova, E.S. (2015). Molecular network control through Boolean canalization. EURASIP Journal on Bioinformatics and Systems Biology, 2015:9.

Dimitrova, E.S., Yordanov, O.I., Matache, M.T. (2015). A difference equation for tracking perturbations in systems of Boolean nested canalyzing functions. Physical Review Letters E, 91(6), 062812.

Le Pape, S., Dimitrova, E.S., Hannaert, P., Konovalov, A.,Volmer, R., Ron, D., Thuillier, R., Hauet, H. (2014). Polynomial algebra as a tool to identify potential therapeutic targets: an application to ischemia-reperfusion injury. FEBS Letters, 588(17), pp. 3062-7.

Stigler, B. and Dimitrova, E.S. (2014). Data Identification and Characterization for Improving Gene Network Inference. Bulletin of Mathematical Biology, 76(11), pp. 2923-40.

Dimitrova, E.S. and Stigler, B. (2013). Inferring the Topology of Gene Regulatory Networks: An Algebraic Approach to Reverse Engineering. In “Mathematical Concepts and Methods in Modern Biology,” Eds. Hodge, T. and Robeva, R. Elsevier.

Layne, L., Dimitrova, E.S., Macauley, M. (2012). Nested canalyzing depth and network stability. Bulletin of Mathematical Biology, 74(2), pp. 422-433.

Dimitrova, E.S., Mitra, I., Jarrah, A.S. (2011). Probabilistic polynomial dynamical systems for reverse engineering of gene regulatory networks. EURASIP J. on Bioinformatics and Systems Biology, 2011:1, pp. 1-33.

Dimitrova, E.S., Garcia-Puente, L.D., Hinkelmann, F., Jarrah, A.S., Laubenbacher, R., Brandilyn Stigler, Stillman, M., Vera-Licona, P. (2011). Parameter estimation for Boolean models of biological networks. Journal of Theoretical Computer Science, 412(2011), pp. 2816-2826.

Dimitrova, E. S. (2010). Estimating the relative volumes of the cones in a Gröbner fan. Mathematics in Computer Science, 3(4), pp. 457-466.

Dimitrova, E.S., McGee, J., Laubenbacher, R., Vera Licona, P. (2010). Discretization of time series data. Journal of Computational Biology, 17(6), pp. 853-868.

Laubenbacher, R., Jarrah, A.S., Dimitrova, E.S., Stigler, B., Vera-Licona, P. (2009). System identification for discrete polynomial models of gene regulatory networks. 15th IFAC Symposium on System Identification (SYSID 2009), Volume 15, Part 1, pp. 11-17.

Dimitrova, E.S., Zardecki, A. (2008).  Forecasting polynomial dynamics. Applied Mathematics and Computation, 204(1), pp. 233-239.

Dimitrova, E.S., Jarrah, A.S., Laubenbacher, R., Stigler, B. (2007). A Gröbner fan method for biochemical network modeling. In Proc. International Symposium on Symbolic and Algebraic Computation (ISSAC), ACM, pp. 122-126.

Dimitrova E.S., Yordanov, O. (2001). Statistics of some low-dimensional chaotic flows. International Journal of Bifurcation and Chaos, 11(10), pp. 2675-2682.

 

PRESENTATIONS

Invited presentations

Dimitrova, E.S., “Molecular Network Control Through Boolean Canalization,” AMS Fall Southeastern Sectional Meeting, University of Central Florida, Orlando, Orlando, FL 
(September, 2017).

Dimitrova, E.S., “Vanishing ideals,” CanaDAM 2017, Ryerson University, Toronto, ON, Canada (June 2017).

Dimitrova, E.S., “Unique Reduced Gröbner Bases of Ideals of Points,” Colloquium talk, Dartmouth College, Hanover, NH (October 2016).

Dimitrova, E.S., “Algebraic models for gene regulatory networks,” Mathematical Biology and Ecology Seminar, Georgia Tech, Atlanta, GA (June 2016).

Dimitrova, E.S., “Properties and applications of vanishing ideals of points over finite fields,” Meeting on Algebraic Geometry for Applications, Clemson University, Clemson, SC (April 2016).

Dimitrova, E.S., “Properties and applications of vanishing ideals of points over finite fields,” Algebra and Discrete Mathematics Seminar and Graduate Student Combinatorics Conference, Clemson University, Clemson, SC (March 2016).

Murrugarra D. and Dimitrova, E., “Control methods for Boolean networks,” Eighth international Symposium on Biomathematics and Ecology: Education and Research (BEER 2015), Illinois State University, Normal, IL (October 2015).

Dimitrova, E.S., Yordanov, O.I., Matache, M.T., A difference equation for tracking perturbations in systems of Boolean nested canalyzing functions. KNOWeSCAPE 2015, European Cooperation in Science and Technology, Mons, Belgium (September 2015).

Dimitrova, E.S., “Algebraic models in systems biology,” Department of Mathematics, University of Kentucky, Lexington, KY (December 2014).

Dimitrova, E.S., “Canalyzation in mathematical modeling,” Keynote address, KNOWeSCAPE 2014, European Cooperation in Science and Technology, Thessaloniki, Greece (November 2014).

Dimitrova, E.S., “Canalyzation in modeling gene regulatory networks,” Biomathematics and Ecology: Education and Research 2013 (BEER’13), Marymount University, Arlington, VA (October 2013).

Dimitrova, E.S. and Stigler, B., “Design of experiment for biological network inference,” Conference on Applied Algebraic Geometry (AG13), Colorado State University, Fort Collins, CO (August 2013).

Dimitrova, E.S. and Stigler, B., “Data characterization and identification for network inference,” Spring Central Sectional AMS Meeting, Iowa State University, Ames, IA (April 2013).

Dimitrova, E.S., “Modeling gene regulatory networks,” Southern Methodist University, Department of Mathematics, Dallas, TX (April 2012).

Dimitrova, E.S., “Perturbation spread in Boolean networks,” George Washington University, AMS special session on Dynamics of Complex Networks, Washington, DC (March 2012).

Dimitrova, E.S., “Modeling gene regulatory networks with canalyzing functions,” Medical College of Georgia, Augusta, GA, (March 2011).

Dimitrova, E.S., Layne, L., “Discrete models of biological networks,” UC Santa Cruz, Department of Bioengineering, Santa Cruz, CA, (August 2010).

Dimitrova, E.S., Layne, L., “Some properties of nested canalyzing and partially nested canalyzing functions,” Department of Mathematics, UC Berkeley, Berkeley, CA (July 2010).

Mitra, I., Dimitrova, E.S., Jarrah, A.S., “Stochastic polynomial dynamical model of the yeast cell cycle,” APS 2010 Meeting, Portland, OR (March 2010).

Dimitrova, E.S., “Probabilistic dynamical systems for reverse engineering of the yeast cell cycle network,” AMS 2009 Central Section Meeting, Waco, TX (October 2009).

Dimitrova, E.S., “Parameter estimation for a drought-related gene network in rice,” SAMSI Transition Workshop: Algebraic Methods in Systems Biology and Statistics, Research Triangle, NC (June 2009).

Dimitrova, E.S., “Discovering gene networks in rice,” SIAM Chapter at Virginia Tech, Blacksburg, VA (April 2009).

Dimitrova, E.S., Jarrah, A.S., “Probabilistic polynomial systems for the reverse engineering of stochastic gene regulatory networks,” Joint Meeting of the American Mathematical Society and Shanghai Mathematical Society, Fudan University, Shanghai, China (December 2008).

Dimitrova, E.S., “Conjecturing variable dependencies in biochemical networks,” Visitors Day, Virginia Tech, Blacksburg, VA (March 2007).

Dimitrova, E.S., “Using the Gröbner fan of an ideal for polynomial model selection,” AMS Sp Southeastern Section Meeting, Special Session on Applicable Algebra, Davidson College, Davidson, NC (March 2007).

Dimitrova, E.S., “Using the Gröbner fan of an ideal for polynomial model selection,” Computational Mathematics Seminar, Department of Mathematical Sciences, Clemson University (February 2007).

Dimitrova, E.S., “Inferring dependencies in biochemical networks,” Third SC-INBRE Bioinformatics Research Symposium, Clemson University (January 2007).

Dimitrova, E.S., “Polynomial models for systems biology: a combinatorial method for model selection,” Bioinformatics Seminar, Clemson University (November 2006).

Dimitrova, E.S., Layne, L., “Term order effect on polynomial models for systems biology,” National EPSCoR Conference, Lexington, KY (November 2006).

Dimitrova, E.S., “Using the Gröbner fan of an ideal for polynomial model selection,” ADM Seminar, Mathematical Sciences, Clemson University (October 2006).

Dimitrova, E.S., “Experimental data preprocessing for reverse engineering,” Mathematical Biology, Institute for Advanced Study / Park City Mathematics Institute, Park City, UT (July 2005).

Dimitrova, E.S., “Discretization of biological data,” 1st Annual Faculty Retreat of Virginia Bioinformatics Institute, Homestead Resort, VA (May 2005).

Dimitrova, E.S., “Time series discretization for reverse engineering of gene networks,” Bulgarian Academy of Science, Sofia, Bulgaria (January 2005).

Dimitrova, E.S., “Time series discretization for reverse engineering of gene networks,” SIAM Student Chapter at Virginia Tech, Blacksburg, VA (November 2004).

Dimitrova, E.S., “A graph-theoretic method for the discretization of gene expression measurements,” SACNAS National Conference, Austin, TX, (October 2004).

Dimitrova, E.S., Stigler, B., Laubenbacher, R., “Continuous and discrete modeling of biological systems,” Mathematical Methods in Bioinformatics, Pre-conference Mathematics Institute Session, Austin, TX (October 2004).

Dimitrova, E.S., Yordanov, O., “Statistics on low-dimensional chaotic flows,” Summer School in Bifurcation and Chaos, Pamplona, Spain (June 2000).

Contributed presentations

Dimitrova, E.S. and Koshy, S., “Long-term survival and chaotic dynamics in population models,” Joint Mathematics Meetings, Seattle, WA (January 2016).

Dimitrova, E.S., “Data identification for gene network inference with algebraic models,” 2015 Annual Meeting for the Society of Mathematical Biology, Atlanta, GA (July 2015).

Dimitrova, E.S., “A computational algebra method for biochemical network modeling,” Joint Mathematics Meetings, San Diego, CA (January 2008).

Dimitrova, E.S., “A Gröbner fan method for biochemical network modeling,” International Symposium on Symbolic and Algebraic Computation, University of Waterloo, Ontario, Canada, (July 2007).

Dimitrova, E.S., Stigler, B., “Applications of the Gröbner fan to gene network reconstruction,” East Coast Computer Algebra Day, Shepherdstown, WV (May 2008).

Dimitrova, E.S., “Mathematical modeling of biochemical networks,” Workshop for Young Researchers in Mathematical Biology, MBI, The Ohio State University, Columbus, OH (March 2007).

Dimitrova, E.S., “Modeling of gene networks,” First Year Graduate Student Seminar, Department of Mathematical Sciences, Clemson University (March 2007).

Dimitrova, E.S., “Time series discretization for reverse engineering of gene networks,” Workshop for Young Researchers in Mathematical Biology, MBI, The Ohio State University, Columbus, OH (March 2006).

 

OTHER PROFESSIONAL ACTIVITIES  

                           Organizer, “Algebraic Geometry Methods for Discrete Dynamical Systems,” Minisymposium at SIAM Conference on Applied Algebraic Geometry, Georgia Tech, Atlanta, GA (August 2017).

                           Organizer, “Biological Networks,” Invited minisymposium at CanaDAM 2017, Ryerson University, Toronto, ON, Canada (June 2017).

                           Panelist, National Science Foundation, Arlington, VA (May 2017).

                           Co-organizer, Special Session on Algebraic and Combinatorial Methods in Mathematical Biology, AMS Spring Southeastern Sectional Meeting, University of Georgia, Athens, GA (March 2016).

                           Co-organizer, Algebraic and Combinatorial Approaches in Systems Biology (SMB), University of Connecticut, Farmington, CT (July 2015).

                           Panelist, National Science Foundation, Arlington, VA (July 2014).

                           Panelist, NSF EPSCoR (May 2012).

                           Panelist, National Science Foundation, Arlington, VA (November 2011).

                           Panelist, National Science Foundation, Arlington, VA (April 2011).

                           Panelist, National Science Foundation, Arlington, VA (April 2010).

                           Organizer, Statistical and Applied Mathematical Sciences Institute (SAMSI), Program on Algebraic Methods in Systems Biology and Statistics: Discrete Models in Systems Biology Workshop, Research Triangle Park, NC (December 2008).

                           Reviewing Editor, Frontiers in Systems Biology.

 

Honors and Awards  

               2011 Mathematical Sciences Faculty Teaching Award, Department of Mathematical Sciences, Clemson University, (2011).     

Project NExT Fellowship (a program of the MAA), AMS, (2006-07).

 

FUNDED/PENDING GRANT PROPOSALS

“Collaborative Research: Selection methods for algebraic design of experiments,” NSF, PI, $200,000, ($100,000), (2017-20). Awarded.

Conference grant, ACSB 2015: A Conference on Algebraic and Combinatorial Approaches in Systems Biology, NSF, co-PI, $15,000, ($3,000), (May 2015). Awarded.

“Data selection for unique model identification,” NSF, PI, $200,000, ($100,000), (2014-17). Awarded.

AWM-NSF Travel Grant, PI, $892, (2013). Awarded.

“Developing discrete network models to discover transcriptional regulation of peach fruit color,” University Research Grant Committee (URGC), PI, $9,138, (2011). Awarded.

“Acquisition of Large-Memory, Many-Core Compute Node for Mathematical Science Research,” NSF, co-PI, $127,196, ($10,175), (2010-11). Awarded.

 

GRADUATE STUDENT ADVISING  

Molly Honnacker (MS&PhD), Project title TBA.

Sherli Koshy Chenthittayil (PhD), “Chaos to Permanence-Through Control Theory,” (April 2017).

Sherli Koshy Chenthittayil (MS), “Determining Parameters Leading to Chaotic Dynamics in Systems,” (May 2015).

Abhishek Pandey (PhD), “Modeling and Optimization of the Allocation of a New Dengue Vaccine,” (April 2014).

Praveen Nalla (MS), “A Probabilistic Model of Perturbation Spread in Networks of (Partially) Nested Canalyzing Functions,” (December 2013).

Kaitlin Woskoff (MS), “Correspondence between the Steady States of Continuous and Discrete Models,” (May 2012).

Margaux Evans (MS), “Adaptive Dynamics via R0 Maximization,” (May 2012).

Ryan Harper (MS), “Modeling Influenza Infections," (August 2012).

Lori Layne (PhD), “Properties and Applications of Nested and Partially Nested Canalyzing Functions,” (May 2011).

Indranil Mitra (MS), “Reverse Engineering of the Yeast Cell-Cycle Network” (December 2009).

Sarah L. Edwards (MS), “Polynomials and Graph Colorings” (May 2008).

Lori Layne (MS), “Community Structures in Biological Networks” (December 2007).

 

UNDERGRADUATE STUDENT ADVISING  

               Advisor, Undergraduate Mathematical Sciences students with concentration in biology (2013-present).

 

TEACHING

Undergraduate Courses

Introduction to Proof, F15, Sp16, F16

Calculus of One Variable I, Sum12

Introduction to Mathematical Models, F11, F12, F12

Differential Equations, Sp11, Sum11, Sp13, F13

Discrete Mathematical Structures I, F10

Elementary Statistical Inference, Sum10, Sum11

Calculus of One Variable II, Sum10, Sum12, Sum13, Sum14, Sum15, Sum16

Abstract Algebra, Sp09, Sum09, Sp11, F11, Sp12, F12, Sp15

Linear Algebra, Sp08, F10, Sp15, Sp17                      

Introduction to Business Statistics, Sp07, F07, F08, F09, Sp10

Statistical Methods I, F06

Calculus I for Engineers, F03, Sp03

Elementary Calculus with Matrices, F02, Sp02

Graduate Courses

Discrete Mathematical Methods for Modeling & Simulation of Biological Systems, Sp10

Computational Algebra, Sum08

Matrix Analysis, F07, Sp08, F08

UNIVERSITY AND PUBLIC SERVICE

            Freshmen advising, Summer 2017.     

            Member, Mathematical Sciences Council (Sp2015-Sp2016).

            Member, Associate Dean of the Graduate School Search Committee (Sp16).

            Member, Commutative Algebra Search Committee (Sp15).

            Member, Mathematical Sciences Teaching Award Committee (2012-2014).

            Co-author, Algebra and Discrete Mathematics Qualifying Exam (2008 & 2009).

               Coordinator, Algebra and Discrete Math Seminar, Dept. of Mathematical Sciences (2007-11).

               Chair, Bioinformatics Search Committee (2007-08).