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- Reinhard C. Laubenbacher, Brandilyn Stigler
- Journal of theoretical biology
- 2004

This paper proposes a new method to reverse engineer gene regulatory networks from experimental data. The modeling framework used is time-discrete deterministic dynamical systems, with a finite setâ€¦ (More)

- Humberto Ortiz-Zuazaga, Alicia AviÃ±o-Diaz, Carlos J. Corrada Bravo, Reinhard C. Laubenbacher, Sandra PeÃ±a de Ortiz, Oscar Moreno
- 2003

Many research groups have described genetic networks as networks of Boolean variables. We will show that these Boolean network models are examples of Finite Dynamical Systems (FDS), and we willâ€¦ (More)

- Grigoriy Blekherman, Reinhard C. Laubenbacher, +5 authors Vladimir Shulaev
- Metabolomics
- 2010

It is well known that significant metabolic change take place as cells are transformed from normal to malignant. This review focuses on the use of different bioinformatics tools in cancerâ€¦ (More)

- Abdul Salam Jarrah, Blessilda P. Raposa, Reinhard C. Laubenbacher
- Physica D. Nonlinear phenomena
- 2007

This paper focuses on the study of certain classes of Boolean functions that have appeared in several different contexts. Nested canalyzing functions have been studied recently in the context ofâ€¦ (More)

- David Murrugarra, Alan Veliz-Cuba, Boris Aguilar, Seda Arat, Reinhard C. Laubenbacher
- EURASIP J. Bioinformatics and Systems Biology
- 2012

Modeling stochasticity in gene regulatory networks is an important and complex problem in molecular systems biology. To elucidate intrinsic noise, several modeling strategies such as the Gillespieâ€¦ (More)

- HÃ©lÃ¨ne Barcelo, Reinhard C. Laubenbacher
- Discrete Mathematics
- 2005

This paper contains a survey of the A-theory of simplicial complexes and graphs, a combinatorial homotopy theory developed recently.The initialmotivation arises from the use of simplicial complexesâ€¦ (More)

- David Murrugarra, Reinhard C. Laubenbacher
- Journal of theoretical biology
- 2011

Understanding design principles of molecular interaction networks is an important goal of molecular systems biology. Some insights have been gained into features of their network topology through theâ€¦ (More)

- Omar ColÃ³n-Reyes, Abdul Salam Jarrah, Reinhard C. Laubenbacher, Bernd Sturmfels
- Complex Systems
- 2006

An important problem in the theory of finite dynamical systems is to link the structure of a system with its dynamics. This paper contains such a link for a family of nonlinear systems over anâ€¦ (More)

- Yuan Li, John O. Adeyeye, David Murrugarra, Boris Aguilar, Reinhard C. Laubenbacher
- Theor. Comput. Sci.
- 2013

Boolean network models of molecular regulatory networks have been used successfully in computational systems biology. The Boolean functions that appear in published models tend to have specialâ€¦ (More)

- Abdul Salam Jarrah, H. Vastani, Kristen Duca, Reinhard C. Laubenbacher
- 2004 43rd IEEE Conference on Decision and Controlâ€¦
- 2004

Competition between organisms that occupy the same physical space is an important phenomenon that has been studied extensively through mathematical models, primarily in ecology. Using a relativelyâ€¦ (More)