Boolean modeling in systems biology: an overview of methodology and applications
Mathematical modeling of biological processes provides deep insights into complex cellular
systems. While quantitative and continuous models such as differential equations have been …
systems. While quantitative and continuous models such as differential equations have been …
Logic-based models for the analysis of cell signaling networks
Computational models are increasingly used to analyze the operation of complex
biochemical networks, including those involved in cell signaling networks. Here we review …
biochemical networks, including those involved in cell signaling networks. Here we review …
Cell fate reprogramming by control of intracellular network dynamics
JGT Zanudo, R Albert - PLoS computational biology, 2015 - journals.plos.org
Identifying control strategies for biological networks is paramount for practical applications
that involve reprogramming a cell's fate, such as disease therapeutics and stem cell …
that involve reprogramming a cell's fate, such as disease therapeutics and stem cell …
Predicting essential components of signal transduction networks: a dynamic model of guard cell abscisic acid signaling
Plants both lose water and take in carbon dioxide through microscopic stomatal pores, each
of which is regulated by a surrounding pair of guard cells. During drought, the plant hormone …
of which is regulated by a surrounding pair of guard cells. During drought, the plant hormone …
Boolean network simulations for life scientists
Modern life sciences research increasingly relies on computational solutions, from large
scale data analyses to theoretical modeling. Within the theoretical models Boolean networks …
scale data analyses to theoretical modeling. Within the theoretical models Boolean networks …
Dynamical and structural analysis of a T cell survival network identifies novel candidate therapeutic targets for large granular lymphocyte leukemia
A Saadatpour, RS Wang, A Liao, X Liu… - PLoS computational …, 2011 - journals.plos.org
The blood cancer T cell large granular lymphocyte (T-LGL) leukemia is a chronic disease
characterized by a clonal proliferation of cytotoxic T cells. As no curative therapy is yet …
characterized by a clonal proliferation of cytotoxic T cells. As no curative therapy is yet …
[图书][B] Probabilistic Boolean networks: the modeling and control of gene regulatory networks
I Shmulevich, ER Dougherty - 2010 - SIAM
It was around the period of World War II that Arturo Rosenblueth and Norbert Wiener were
taking the first steps in the direction of systems medicine. They formed an interesting pair …
taking the first steps in the direction of systems medicine. They formed an interesting pair …
Control of complex networks requires both structure and dynamics
The study of network structure has uncovered signatures of the organization of complex
systems. However, there is also a need to understand how to control them; for example …
systems. However, there is also a need to understand how to control them; for example …
Boolean modeling of biological regulatory networks: a methodology tutorial
A Saadatpour, R Albert - Methods, 2013 - Elsevier
Given the complexity and interactive nature of biological systems, constructing informative
and coherent network models of these systems and subsequently developing efficient …
and coherent network models of these systems and subsequently developing efficient …
A survey of gene regulatory networks modelling methods: from differential equations, to Boolean and qualitative bioinspired models
Abstract Gene Regulatory Networks (GRNs) represent the interactions among genes
regulating the activation of specific cell functionalities, such as reception of (chemical) …
regulating the activation of specific cell functionalities, such as reception of (chemical) …