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An entropic characterization of protein interaction networks and cellular robustness
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| Zeitschriftentitel: | Journal of The Royal Society Interface |
|---|---|
| Personen und Körperschaften: | , , |
| In: | Journal of The Royal Society Interface, 3, 2006, 11, S. 843-850 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
The Royal Society
|
| Schlagwörter: |
| author_facet |
Manke, Thomas Demetrius, Lloyd Vingron, Martin Manke, Thomas Demetrius, Lloyd Vingron, Martin |
|---|---|
| author |
Manke, Thomas Demetrius, Lloyd Vingron, Martin |
| spellingShingle |
Manke, Thomas Demetrius, Lloyd Vingron, Martin Journal of The Royal Society Interface An entropic characterization of protein interaction networks and cellular robustness Biomedical Engineering Biochemistry Biomaterials Bioengineering Biophysics Biotechnology |
| author_sort |
manke, thomas |
| spelling |
Manke, Thomas Demetrius, Lloyd Vingron, Martin 1742-5689 1742-5662 The Royal Society Biomedical Engineering Biochemistry Biomaterials Bioengineering Biophysics Biotechnology http://dx.doi.org/10.1098/rsif.2006.0140 <jats:p> The structure of molecular networks is believed to determine important aspects of their cellular function, such as the organismal resilience against random perturbations. Ultimately, however, cellular behaviour is determined by the dynamical processes, which are constrained by network topology. The present work is based on a fundamental relation from dynamical systems theory, which states that the macroscopic resilience of a steady state is correlated with the uncertainty in the underlying microscopic processes, a property that can be measured by entropy. Here, we use recent network data from large-scale protein interaction screens to characterize the diversity of possible pathways in terms of network entropy. This measure has its origin in statistical mechanics and amounts to a global characterization of both structural and dynamical resilience in terms of microscopic elements. We demonstrate how this approach can be used to rank network elements according to their contribution to network entropy and also investigate how this suggested ranking reflects on the functional data provided by gene knockouts and RNAi experiments in yeast and <jats:italic>Caenorhabditis elegans</jats:italic> . Our analysis shows that knockouts of proteins with large contribution to network entropy are preferentially lethal. This observation is robust with respect to several possible errors and biases in the experimental data. It underscores the significance of entropy as a fundamental invariant of the dynamical system, and as a measure of structural and dynamical properties of networks. Our analytical approach goes beyond the phenomenological studies of cellular robustness based on local network observables, such as connectivity. One of its principal achievements is to provide a rationale to study proxies of cellular resilience and rank proteins according to their importance within the global network context. </jats:p> An entropic characterization of protein interaction networks and cellular robustness Journal of The Royal Society Interface |
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| title |
An entropic characterization of protein interaction networks and cellular robustness |
| title_unstemmed |
An entropic characterization of protein interaction networks and cellular robustness |
| title_full |
An entropic characterization of protein interaction networks and cellular robustness |
| title_fullStr |
An entropic characterization of protein interaction networks and cellular robustness |
| title_full_unstemmed |
An entropic characterization of protein interaction networks and cellular robustness |
| title_short |
An entropic characterization of protein interaction networks and cellular robustness |
| title_sort |
an entropic characterization of protein interaction networks and cellular robustness |
| topic |
Biomedical Engineering Biochemistry Biomaterials Bioengineering Biophysics Biotechnology |
| url |
http://dx.doi.org/10.1098/rsif.2006.0140 |
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2006 |
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843-850 |
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<jats:p>
The structure of molecular networks is believed to determine important aspects of their cellular function, such as the organismal resilience against random perturbations. Ultimately, however, cellular behaviour is determined by the dynamical processes, which are constrained by network topology. The present work is based on a fundamental relation from dynamical systems theory, which states that the macroscopic resilience of a steady state is correlated with the uncertainty in the underlying microscopic processes, a property that can be measured by entropy. Here, we use recent network data from large-scale protein interaction screens to characterize the diversity of possible pathways in terms of network entropy. This measure has its origin in statistical mechanics and amounts to a global characterization of both structural and dynamical resilience in terms of microscopic elements. We demonstrate how this approach can be used to rank network elements according to their contribution to network entropy and also investigate how this suggested ranking reflects on the functional data provided by gene knockouts and RNAi experiments in yeast and
<jats:italic>Caenorhabditis elegans</jats:italic>
. Our analysis shows that knockouts of proteins with large contribution to network entropy are preferentially lethal. This observation is robust with respect to several possible errors and biases in the experimental data. It underscores the significance of entropy as a fundamental invariant of the dynamical system, and as a measure of structural and dynamical properties of networks. Our analytical approach goes beyond the phenomenological studies of cellular robustness based on local network observables, such as connectivity. One of its principal achievements is to provide a rationale to study proxies of cellular resilience and rank proteins according to their importance within the global network context.
</jats:p> |
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| description | <jats:p> The structure of molecular networks is believed to determine important aspects of their cellular function, such as the organismal resilience against random perturbations. Ultimately, however, cellular behaviour is determined by the dynamical processes, which are constrained by network topology. The present work is based on a fundamental relation from dynamical systems theory, which states that the macroscopic resilience of a steady state is correlated with the uncertainty in the underlying microscopic processes, a property that can be measured by entropy. Here, we use recent network data from large-scale protein interaction screens to characterize the diversity of possible pathways in terms of network entropy. This measure has its origin in statistical mechanics and amounts to a global characterization of both structural and dynamical resilience in terms of microscopic elements. We demonstrate how this approach can be used to rank network elements according to their contribution to network entropy and also investigate how this suggested ranking reflects on the functional data provided by gene knockouts and RNAi experiments in yeast and <jats:italic>Caenorhabditis elegans</jats:italic> . Our analysis shows that knockouts of proteins with large contribution to network entropy are preferentially lethal. This observation is robust with respect to several possible errors and biases in the experimental data. It underscores the significance of entropy as a fundamental invariant of the dynamical system, and as a measure of structural and dynamical properties of networks. Our analytical approach goes beyond the phenomenological studies of cellular robustness based on local network observables, such as connectivity. One of its principal achievements is to provide a rationale to study proxies of cellular resilience and rank proteins according to their importance within the global network context. </jats:p> |
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| spelling | Manke, Thomas Demetrius, Lloyd Vingron, Martin 1742-5689 1742-5662 The Royal Society Biomedical Engineering Biochemistry Biomaterials Bioengineering Biophysics Biotechnology http://dx.doi.org/10.1098/rsif.2006.0140 <jats:p> The structure of molecular networks is believed to determine important aspects of their cellular function, such as the organismal resilience against random perturbations. Ultimately, however, cellular behaviour is determined by the dynamical processes, which are constrained by network topology. The present work is based on a fundamental relation from dynamical systems theory, which states that the macroscopic resilience of a steady state is correlated with the uncertainty in the underlying microscopic processes, a property that can be measured by entropy. Here, we use recent network data from large-scale protein interaction screens to characterize the diversity of possible pathways in terms of network entropy. This measure has its origin in statistical mechanics and amounts to a global characterization of both structural and dynamical resilience in terms of microscopic elements. We demonstrate how this approach can be used to rank network elements according to their contribution to network entropy and also investigate how this suggested ranking reflects on the functional data provided by gene knockouts and RNAi experiments in yeast and <jats:italic>Caenorhabditis elegans</jats:italic> . Our analysis shows that knockouts of proteins with large contribution to network entropy are preferentially lethal. This observation is robust with respect to several possible errors and biases in the experimental data. It underscores the significance of entropy as a fundamental invariant of the dynamical system, and as a measure of structural and dynamical properties of networks. Our analytical approach goes beyond the phenomenological studies of cellular robustness based on local network observables, such as connectivity. One of its principal achievements is to provide a rationale to study proxies of cellular resilience and rank proteins according to their importance within the global network context. </jats:p> An entropic characterization of protein interaction networks and cellular robustness Journal of The Royal Society Interface |
| spellingShingle | Manke, Thomas, Demetrius, Lloyd, Vingron, Martin, Journal of The Royal Society Interface, An entropic characterization of protein interaction networks and cellular robustness, Biomedical Engineering, Biochemistry, Biomaterials, Bioengineering, Biophysics, Biotechnology |
| title | An entropic characterization of protein interaction networks and cellular robustness |
| title_full | An entropic characterization of protein interaction networks and cellular robustness |
| title_fullStr | An entropic characterization of protein interaction networks and cellular robustness |
| title_full_unstemmed | An entropic characterization of protein interaction networks and cellular robustness |
| title_short | An entropic characterization of protein interaction networks and cellular robustness |
| title_sort | an entropic characterization of protein interaction networks and cellular robustness |
| title_unstemmed | An entropic characterization of protein interaction networks and cellular robustness |
| topic | Biomedical Engineering, Biochemistry, Biomaterials, Bioengineering, Biophysics, Biotechnology |
| url | http://dx.doi.org/10.1098/rsif.2006.0140 |