Search Results - "Dimitrova, Elena S."

Cyclone: open-source package for simulation and analysis of finite dynamical systems by Dimitrova, Elena S, Knapp, Adam C, Stigler, Brandilyn, Stillman, Michael E

“…Abstract Motivation While there are software packages that analyze Boolean, ternary, or other multi-state models, none compute the complete state space of…”
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Geometric Characterization of Data Sets with Unique Reduced Gröbner Bases by He, Qijun, Dimitrova, Elena S., Stigler, Brandilyn, Zhang, Anyu

“…Model selection based on experimental data is an important challenge in biological data science. Particularly when collecting data is expensive or…”
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Molecular network control through boolean canalization by Murrugarra, David, Dimitrova, Elena S.

“…Boolean networks are an important class of computational models for molecular interaction networks. Boolean canalization, a type of hierarchical clustering of…”
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Discretization of time series data by Dimitrova, Elena S, Licona, M Paola Vera, McGee, John, Laubenbacher, Reinhard

“…An increasing number of algorithms for biochemical network inference from experimental data require discrete data as input. For example, dynamic Bayesian…”
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Forecasting polynomial dynamics by Dimitrova, Elena S., Zardecki, Andrew

“…The reverse engineering method of gene regulatory networks, recently implemented by Laubenbacher and Stigler, is used to generate a multivariate time series…”
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Probabilistic polynomial dynamical systems for reverse engineering of gene regulatory networks by Dimitrova, Elena S, Mitra, Indranil, Jarrah, Abdul Salam

“…Elucidating the structure and/or dynamics of gene regulatory networks from experimental data is a major goal of systems biology. Stochastic models have the…”
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Difference equation for tracking perturbations in systems of Boolean nested canalyzing functions by Dimitrova, Elena S, Yordanov, Oleg I, Matache, Mihaela T

“…This paper studies the spread of perturbations through networks composed of Boolean functions with special canalyzing properties. Canalyzing functions have the…”
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Stroke prevention in atrial fibrillation and ‘real world’ adherence to guidelines in the Balkan Region: The BALKAN-AF Survey by Potpara, Tatjana S., Dan, Gheorghe-Andrei, Trendafilova, Elina, Goda, Artan, Kusljugic, Zumreta, Manola, Sime, Music, Ljilja, Musetescu, Rodica, Badila, Elisabeta, Mitic, Gorana, Paparisto, Vilma, Dimitrova, Elena S., Polovina, Marija M., Petranov, Stanislav L., Djergo, Hortensia, Loncar, Daniela, Bijedic, Amira, Brusich, Sandro, Lip, Gregory Y. H.

“…Data on the management of atrial fibrillation (AF) in the Balkan Region are limited. The Serbian AF Association (SAFA) prospectively investigated contemporary…”
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Estimating the Volumes of the Cones in a Gröbner Fan by Dimitrova, Elena S.

“…We present a stochastic method for estimating the relative volumes of the Gröbner cones of a Gröbner fan without computing the actual fan. The method is…”
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The Patterns of Non-vitamin K Antagonist Oral Anticoagulants (NOACs) Use in Patients with Atrial Fibrillation in Seven Balkan Countries: a Report from the BALKAN-AF Survey by Potpara, Tatjana S., Trendafilova, Elina, Dan, Gheorghe-Andrei, Goda, Artan, Kusljugic, Zumreta, Manola, Sime, Music, Ljilja, Gjini, Viktor, Pojskic, Belma, Popescu, Mircea Ioakim, Georgescu, Catalina Arsenescu, Dimitrova, Elena S., Kamenova, Delyana, Ekmeciu, Uliks, Mrsic, Denis, Nenezic, Ana, Brusich, Sandro, Milanov, Srdjan, Zeljkovic, Ivan, Lip, Gregory Y. H.

“…Introduction Data on management of atrial fibrillation (AF) in the Balkan Region are scarce. To capture the patterns in AF management in contemporary clinical…”
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A unified approach to reverse engineering and data selection for unique network identification by Veliz-Cuba, Alan, Newsome-Slade, Vanessa, Dimitrova, Elena S

“…Due to cost concerns, it is optimal to gain insight into the connectivity of biological and other networks using as few experiments as possible. Data selection…”
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Probabilistic polynomial dynamical systems for reverse engineering of gene regulatory networks: Doc 1 by Dimitrova, Elena S, Mitra, Indranil, Jarrah, Abdul Salam

“…Elucidating the structure and/or dynamics of gene regulatory networks from experimental data is a major goal of systems biology. Stochastic models have the…”
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Estimating the Long-term Behavior of Biologically Inspired Agent-based Models by Cruz, Daniel A, Toppen, Jack, Park, Eunbi, Kemp, Melissa L, Dimitrova, Elena S

“…An agent-based model (ABM) is a computational model in which the local interactions of autonomous agents with each other and with their environment give rise…”
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Algebraic Experimental Design: Theory and Computation by Dimitrova, Elena S, Fredrickson, Cameron H, Rondoni, Nicholas A, Stigler, Brandilyn, Veliz-Cuba, Alan

“…SIAM Journal on Applied Algebra and Geometry, 8 (2024), 284-301 Over the past several decades, algebraic geometry has provided innovative approaches to…”
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Algebraic Model Selection and Experimental Design in Biological Data Science by Zhang, Anyu, Hu, Jingzhen, Liang, Qingzhong, Dimitrova, Elena S, Stigler, Brandilyn

“…Advances in Applied Mathematics, 133 (2022) Design of experiments and model selection, though essential steps in data science, are usually viewed as unrelated…”
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Molecular Network Control Through Boolean Canalization by Murrugarra, David, Dimitrova, Elena S

“…EURASIP Journal on Bioinformatics and Systems Biology, 2015:9, 2015 Boolean networks are an important class of computational models for molecular interaction…”
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Geometric characterization of data sets with unique reduced Gr\"obner bases by Dimitrova, Elena S, He, Qijun, Stigler, Brandilyn, Zhang, Anyu

“…Bulletin of Mathematical Biology 81 (2019) 2691-2705 Model selection based on experimental data is an important challenge in biological data science…”
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Polynomial models for systems biology: Data discretization and term order effect on dynamics by Dimitrova, Elena S

“…Systems biology aims at system-level understanding of biological systems, in particular cellular networks. The milestones of this understanding are knowledge…”
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Polynomial models for systems biology: Data discretization and term order effect on dynamics by Dimitrova, Elena S

“…Systems biology aims at system-level understanding of biological systems, in particular cellular networks. The milestones of this understanding are knowledge…”
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Discretization of Time Series Data by Dimitrova, Elena S, McGee, John J, Laubenbacher, Reinhard C

“…Data discretization, also known as binning, is a frequently used technique in computer science, statistics, and their applications to biological data analysis…”
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