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The large-scale organization of metabolic networks
TLDR
In a cell or microorganism, the processes that generate mass, energy, information transfer and cell-fate specification are seamlessly integrated through a complex network of cellular constituents and reactions. Expand
Scale-free networks in cell biology
  • R. Albert
  • Biology, Medicine
  • Journal of Cell Science
  • 28 October 2005
A cell's behavior is a consequence of the complex interactions between its numerous constituents, such as DNA, RNA, proteins and small molecules. Cells use signaling pathways and regulatoryExpand
The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster.
Expression of the Drosophila segment polarity genes is initiated by a pre-pattern of pair-rule gene products and maintained by a network of regulatory interactions throughout several stages ofExpand
Network model of survival signaling in large granular lymphocyte leukemia
T cell large granular lymphocyte (T-LGL) leukemia features a clonal expansion of antigen-primed, competent, cytotoxic T lymphocytes (CTL). To systematically understand signaling components thatExpand
Boolean network simulations for life scientists
TLDR
In this paper we provide a clear overview of the concepts used in Boolean simulations, present a software library that can perform these simulations based on simple text inputs and give three case studies. Expand
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 abscisic acidExpand
Boolean modeling in systems biology: an overview of methodology and applications.
TLDR
We provide a methodology overview of Boolean modeling of cellular networks, attractor analysis of Boolean dynamic models, as well as inferring biological regulatory mechanisms from high-throughput data using Boolean models. Expand
Common and unique elements of the ABA-regulated transcriptome of Arabidopsis guard cells
BackgroundIn the presence of drought and other desiccating stresses, plants synthesize and redistribute the phytohormone abscisic acid (ABA). ABA promotes plant water conservation by acting onExpand
Differential gene expression in Arabidopsis wild-type and mutant anthers: insights into anther cell differentiation and regulatory networks.
In flowering plants, the anther contains highly specialized reproductive and somatic cells that are required for male fertility. Genetic studies have uncovered several genes that are important forExpand
Cell Fate Reprogramming by Control of Intracellular Network Dynamics
TLDR
We develop a novel network control framework that integrates the structural and functional information available for intracellular networks to predict control targets for disease therapeutics and stem cell reprogramming. Expand
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