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  1. Synthetic and systems biology for microbial production of commodity chemicals
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  3. Open access journals | Open Science | Elsevier

  • Serie: SpringerBriefs in Biochemistry and Molecular Biology » Bokklubben;
  • Modeling formalisms in Systems Biology?
  • Journal of Plant Physiology!
  • Understanding the Essentials of Critical Care Nursing.

Biological systems manifest many important examples of emergent properties in the complex interplay of components. Traditional study of biological systems requires reductive methods in which quantities of data are gathered by category, such as concentration over time in response to a certain stimulus. Computers are critical to analysis and modelling of these data. The goal is to create accurate real-time models of a system's response to environmental and internal stimuli, such as a model of a cancer cell in order to find weaknesses in its signalling pathways, or modelling of ion channel mutations to see effects on cardiomyocytes and in turn, the function of a beating heart.

Creating a cellular model has been a particularly challenging task of systems biology and mathematical biology. It involves the use of computer simulations of the many cellular subsystems such as the networks of metabolites , enzymes which comprise metabolism and transcription , translation , regulation and induction of gene regulatory networks.

Synthetic and systems biology for microbial production of commodity chemicals

A whole cell computational model for the bacterium Mycoplasma genitalium , including all its genes, gene products, and their interactions, was built by scientists from Stanford University and the J. Craig Venter Institute and published on 20 July in Cell. A dynamic computer model of intracellular signaling was the basis for Merrimack Pharmaceuticals to discover the target for their cancer medicine MM Membrane computing is the task of modelling specifically a cell membrane.

An open source simulation of C.

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So far the physics engine Gepetto has been built and models of the neural connectome and a muscle cell have been created in the NeuroML format. Protein structure prediction is the prediction of the three-dimensional structure of a protein from its amino acid sequence—that is, the prediction of a protein's tertiary structure from its primary structure. It is one of the most important goals pursued by bioinformatics and theoretical chemistry.

Developing Synthetic Transport Systems Springer Briefs in Biochemistry and Molecular Biology

Protein structure prediction is of high importance in medicine for example, in drug design and biotechnology for example, in the design of novel enzymes. Every two years, the performance of current methods is assessed in the CASP experiment. The Blue Brain Project is an attempt to create a synthetic brain by reverse-engineering the mammalian brain down to the molecular level. The project is headed by the Institute's director, Henry Markram.

Using a Blue Gene supercomputer running Michael Hines's NEURON software , the simulation does not consist simply of an artificial neural network , but involves a partially biologically realistic model of neurons. The last decade has seen the emergence of a growing number of simulations of the immune system. The Virtual Liver project is a 43 million euro research program funded by the German Government, made up of seventy research group distributed across Germany.

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The goal is to produce a virtual liver, a dynamic mathematical model that represents human liver physiology , morphology and function. Electronic trees e-trees usually use L-systems to simulate growth. L-systems are very important in the field of complexity science and A-life. A universally accepted system for describing changes in plant morphology at the cellular or modular level has yet to be devised. Ecosystem models are mathematical representations of ecosystems.

The purpose of models in ecotoxicology is the understanding, simulation and prediction of effects caused by toxicants in the environment. Most current models describe effects on one of many different levels of biological organization e. Journal of Plant Physiology. Editors-in-Chief: Herbert J. View Editorial Board. Submit Your Paper Enter your login details below. Username Password I forgot my password Register new account. Supports Open Access.


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