Pieter rein ten wolde thesis

prof. dr. P.R. ten Wolde

The concentrations of the components of these networks proteins, DNA are typically low, i. For reproduction of material from PPS: For reproduction of material from NJC: This is why many researchers in systems biology are starting to talk about the genetic circuitry of cells using terms and concepts borrowed from electronic and computer sciences, and even to talk of cells as though they perform kinds of computation, receiving signals which they process to generate particular kinds of 'output' responses.

By considering the simplest models that incorporate these constraints, we highlight their profound consequences in terms of the effort that must be expended to make accurate copies. The logic of life April 20, Even though the entire human genome has now been 'read' - the chemical composition of our DNA has been more or less mapped out, gene by gene - we still have a rather poor grasp of how living cells actually work.

If the material has been adapted instead of reproduced from the original RSC publication "Reproduced from" can be substituted with "Adapted from". For reproduction of material from NJC: About Professor Lubensky does theoretical and computational research at the interface between physics and biology, and in particular in the rapidly growing area of systems biology.

These measurements are inevitably corrupted by the noise that arises from the stochastic arrival of the ligand molecules by diffusion and the stochastic binding of the ligand to the receptor.

dhr. prof. dr. P.R. (Pieter Rein) ten Wolde

To do that, they may need help from physicists, electronic and computer scientists, and others. Such a copy process happens not only during DNA replication, needed for cell division, but also during protein synthesis. The qualitative behavior and robustness of these models are then analyzed with the goal of making novel, testable predictions.

Hidden thermodynamic driving enables the overall thermodynamics of reactions to be tuned, whilst maintaining tight catalytic control over the rection kinetics.

These data demonstrate the importance of increasing complexity in models, a direction in which the authors are continuing to move. We find that the chemotaxis network of E. Homogeneous nucleation and the Ostwald step rule P. Each resource imposes a fundamental sensing limit, which means that the sensing precision is bounded by the limiting resource and cannot be enhanced by increasing another resource—these resources cannot compensate each other.

We show, that more complex environments can favour more complex decision-making strategies. Go to our Instructions for using Copyright Clearance Center page for details. Living cells measure chemical concentrations of signalling molecules via receptor proteins on their surface that bind the signalling molecules.

This time averaging has to be performed by the signaling network downstream of the receptors. And what is the lowest amount of energy needed to execute such operations? Back to Research activities page Background In many networks of interacting components, the spatial distribution of the components and the stochastic character of their interactions are of critical importance for the macroscopic behavior of the system.

Applications The GFRD algorithm is generic and can be applied to a wide variety of reaction-diffusion problems, including those in population dynamics, evolution, and soft-condensed matter physics. Simulation of homogeneous crystal nucleation close to coexistence P. We propose a molecular version of the full device in which all feedback and information-processing is treated explicitly.

E 81, R Only when a receptor molecule is bound to such a signalling molecule, a phosphate group is added to a downstream messenger protein that carries the signal into the nucleus. One of the central discoveries in this field, now called 'systems biology' was made as far back as the s, when it was found that genes can 'regulate' each other, controlling the rate at which a gene is converted to its corresponding protein molecule or even switching one another 'on' or 'off' entirely.

And if so, how efficient can these cellular computers ultimately be? That's because the genome is not really a 'book of life', but is just a catalogue of the parts of the cellular machinery, rather like a list of all the electronic components in a complicated computer circuit.

It states that in an optimally designed sensing system, each resource is equally limiting, so that no resource is wasted. Ten Wolde asks whether these networks display characteristic patterns that might provide clues to how they work, or whether in contrast the wiring pattern just looks random.

Non-equilibrium systems can lift this trade-off. The role of mechanical forces in shaping tissues during animal development. As a consequence, although Szilard's ideas were correct, there has been great confusion about them ever since. Szilard's engine, proposed inillustrates the fundamental physics of measurement and feedback operations - Szilard himself used it to argue that it is impossible to extract useful work by measuring and then exploiting the fluctuations of an equilibrium system.

This means that biochemical networks have to be simulated at the particle level in time and space. E 33,If you are the author of this article you still need to obtain permission to reproduce the whole article in a third party publication with the exception of reproduction of the whole article in a thesis or dominicgaudious.net by: Pieter Rein ten Wolde, group leader of the Biochemical Networks group at AMOLF, together with his colleague Thomas Ouldridge of the Imperial College London, investigated the theoretical framework for such cellular computers.

PIETER REIN TEN WOLDE published 1 Research Articles on Check More at dominicgaudious.net dominicgaudious.net Pieter Rein ten Wolde Back to all people Group leader: Biochemical Networks. Department of Physics and Astronomy, Faculty of Sciences. Home | Research | Physics of Living Systems | Theoretical Biophysics | Staff | Wolde, Pieter Rein |.

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