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Abstract The cell is the fundamental entity of a living organism. Four main types of chemical compounds are essential for any living organism: amino acids, fatty acids, nucleic acids, and sugars [1]. Fatty acids form membranes (composed mainly of phospholipids…
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Abstract Systems biology combines computational modeling with quantitative experimental measurements to study complex biological processes. Here, we outline an approach for parameterizing and validating a systems biology model to yield predictive tool that can…
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The amount of nanoparticles (NPs) in human environment is increasing. The main sources are the increased introduction in consumer products and air pollution (diesel exhaust). It is meanwhile common knowledge that NPs behave differently as bulk material because…
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Patterning is an important step in animal development that generates spatially non‐uniform gene expression patterns or spatially heterogeneous cellular responses. Patterning is realised by the generation and reading of positional information provided by spatia…
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Abstract Dynamical systems modeling, particularly via systems of ordinary differential equations, has been used to effectively capture the temporal behavior of different biochemical components in signal transduction networks. Despite the recent advances in exp…
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Systems biology came about as growing numbers of scientists and engineers from different fields created experimental methods and algorithms that supported the analysis of very large quantities of biological data. Systems Biology: A Very Short Introduction  ou…
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Abstract Axon guidance is a crucial process for growth of the central and peripheral nervous systems. In this study, 3 axon guidance related disorders, namely-Duane Retraction Syndrome (DRS), Horizontal Gaze Palsy with Progressive Scoliosis (HGPPS) and Congeni…
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2019-07-05T16:48:54Z
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Abstract Summary BondGraphs.jl is a Julia implementation of bond graphs. Bond graphs provide a modelling framework that describes energy flow through a physical system and by construction enforce thermodynamic constraints. The framework is widely used in engin…
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Joshua Forrest, Vijay Rajagopal, Michael PH Stumpf, Michael Pan
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Systems biology has emerged during the past 20 years with the goal of studying organisms holistically and comprehensively. It is characterized by modeling and large datasets. The introduction of high-throughput technology in the 1990s led to a wealth of biolog…
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Abstract Rapid advancements in high-throughput omics technologies and experimental protocols have led to the generation of vast amounts of biomolecular data on cancer that now populates several online databases and resources. Cancer systems biology models buil…
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