scholarly journals Cell-Fate Determination from Embryo to Cancer Development: Genomic Mechanism Elucidated

2019 ◽  
Author(s):  
Masa Tsuchiya ◽  
Alessandro Giuliani ◽  
Kenichi Yoshikawa
Keyword(s):  
Critical Point ◽  
Cell Fate ◽  
Critical State ◽  
Local Level ◽  
Stochastic Perturbation ◽  
Physical Principle ◽  
Cancer Development ◽  
Biological Regulation ◽  
Self Organized ◽  
Organizing Center

AbstractThe elucidation of the how and when of a cell-fate change asks for a physically reasonable mechanism allowing to achieve a coordinated switching of thousands of genes within a small and highly packed cell nucleus. We previously demonstrated that whole genome expression is dynamically self-organized through the emergence of a critical point. Furthermore, it has been confirmed that this happens at both the cell-population and single-cell level through the physical principle of self-organized criticality.In this paper, we further examine the genomic mechanism which determines cell-fate changes from embryo to cancer development. The state of the critical point, acting as the organizing center of cell-fate, determines whether the genome resides in a super- or sub-critical state. In the super-critical state, a specific stochastic perturbation can spread over the entire system through the ‘genome engine’ - an autonomous critical-control genomic system, whereas in the sub-critical state, the perturbation remains at a local level. We provide a consistent framework to develop a biological regulation transition theory demonstrating the cell-fate change.

scholarly journals Cell-Fate Determination from Embryo to Cancer Development: Genomic Mechanism Elucidated

2020 ◽  
Vol 21 (13) ◽  
pp. 4581 ◽  
Author(s):  
Masa Tsuchiya ◽  
Alessandro Giuliani ◽  
Kenichi Yoshikawa
Keyword(s):  
Critical Point ◽  
Cell Fate ◽  
Critical State ◽  
Local Level ◽  
Stochastic Perturbation ◽  
Physical Principle ◽  
Cancer Development ◽  
Biological Regulation ◽  
Organizing Center ◽  
Whole Genome Expression

Elucidation of the genomic mechanism that guides the cell-fate change is one of the fundamental issues of biology. We previously demonstrated that whole genome expression is coordinated by the emergence of a critical point at both the cell-population and single-cell levels through the physical principle of self-organized criticality. In this paper, we further examine the genomic mechanism that determines the cell-fate changes from embryo to cancer development. The state of the critical point, acting as the organizing center of the cell fate, determines whether the genome resides in a super- or sub-critical state. In the super-critical state, a specific stochastic perturbation can spread over the entire system through the “genome engine”, an autonomous critical-control genomic system, whereas in the sub-critical state, the perturbation remains at a local level. The cell-fate changes when the genome becomes super-critical. We provide a consistent framework to develop a time-evolutional transition theory for the biological regulation of the cell-fate change.

scholarly journals Mechanisms of Self-Organized Quasicriticality in Neuronal Network Models

2020 ◽  
Vol 8 ◽  
Author(s):  
Osame Kinouchi ◽  
Renata Pazzini ◽  
Mauro Copelli
Keyword(s):  
Phase Transition ◽  
Information Processing ◽  
Critical Point ◽  
Neuronal Network ◽  
Critical Region ◽  
Critical State ◽  
Neuronal Networks ◽  
Network Models ◽  
Biological Mechanisms ◽  
Self Organized

The critical brain hypothesis states that there are information processing advantages for neuronal networks working close to the critical region of a phase transition. If this is true, we must ask how the networks achieve and maintain this critical state. Here, we review several proposed biological mechanisms that turn the critical region into an attractor of a dynamics in network parameters like synapses, neuronal gains, and firing thresholds. Since neuronal networks (biological and models) are not conservative but dissipative, we expect not exact criticality but self-organized quasicriticality, where the system hovers around the critical point.

scholarly journals Self-Organized Criticality on Twitter: Phenomenological Theory and Empirical Investigation Based on Data Analysis Results

Complexity ◽  
2019 ◽  
Vol 2019 ◽  
pp. 1-16 ◽  
Author(s):  
Andrey Dmitriev ◽  
Victor Dmitriev ◽  
Stepan Balybin
Keyword(s):  
Time Series ◽  
Critical State ◽  
Empirical Investigation ◽  
Phenomenological Theory ◽  
Self Organization ◽  
Protest Movements ◽  
Self Organized ◽  
Self Organized Criticality ◽  
Stochastic Sources ◽  
Adiabatic Mode

Recently, there has been an increasing number of empirical evidence supporting the hypothesis that spread of avalanches of microposts on social networks, such as Twitter, is associated with some sociopolitical events. Typical examples of such events are political elections and protest movements. Inspired by this phenomenon, we built a phenomenological model that describes Twitter’s self-organization in a critical state. An external manifestation of this condition is the spread of avalanches of microposts on the network. The model is based on a fractional three-parameter self-organization scheme with stochastic sources. It is shown that the adiabatic mode of self-organization in a critical state is determined by the intensive coordinated action of a relatively small number of network users. To identify the critical states of the network and to verify the model, we have proposed a spectrum of three scaling indicators of the observed time series of microposts.

Fluctuations at the self-organized critical state

1997 ◽  
Vol 56 (6) ◽  
pp. 6710-6718 ◽  
Author(s):  
Hans-Henrik Stølum
Keyword(s):  
Critical State ◽  
The Self ◽  
Self Organized

scholarly journals Persistent dynamic correlations in self-organized critical systems away from their critical point

2007 ◽  
Vol 373 ◽  
pp. 215-230 ◽  
Author(s):  
Ryan Woodard ◽  
David E. Newman ◽  
Raúl Sánchez ◽  
Benjamin A. Carreras
Keyword(s):  
Critical Point ◽  
Critical Systems ◽  
Dynamic Correlations ◽  
Self Organized

scholarly journals Finite-size transitions in complex membranes

2020 ◽  
Author(s):  
M. Girard ◽  
T. Bereau
Keyword(s):  
Experimental Evidence ◽  
Critical Point ◽  
Finite Size ◽  
Underlying Mechanism ◽  
Large Temperature ◽  
Strong Argument ◽  
Biological Regulation ◽  
Critical Manifold ◽  
Critical Composition ◽  
Dynamics Simulations

ABSTRACTThe lipid raft hypothesis postulates that cell membranes possess some degree of lateral organization. The last decade has seen a large amount of experimental evidence for rafts. Yet, the underlying mechanism remains elusive. One hypothesis that supports rafts relies on the membrane to lie near a critical point. While supported by experimental evidence, the role of regulation is unclear. Using both a lattice model and molecular dynamics simulations, we show that lipid regulation of a many-component membrane can lead to critical behavior over a large temperature range. Across this range, the membrane displays a critical composition due to finite-size effects. This mechanism provides a rationale as to how cells tune their composition without the need for specific sensing mechanisms. It is robust and reproduces important experimentally verified biological trends: membrane-demixing temperature closely follows cell growth temperature, and the composition evolves along a critical manifold. The simplicity of the mechanism provides a strong argument in favor of the critical membrane hypothesis.SIGNIFICANCEWe show that biological regulation of a large amount of phospholipids in membranes naturally leads to a critical composition for finite-size systems. This suggests that regulating a system near a critical point is trivial for cells. These effects vanish logarithmically and therefore can be present in micron-sized systems.

Complexity and Criticality

2020 ◽  
pp. 42-50
Author(s):  
Helmut Satz
Keyword(s):  
Complex System ◽  
Complex Systems ◽  
Critical Point ◽  
Correlation Length ◽  
Critical Behavior ◽  
Scale Free ◽  
Self Organized ◽  
Self Organized Criticality ◽  
Free Behavior

Complex systems and critical behavior in complex system are defined in terms of correlation between constituents in the medium, subject to screening by intermediate constituents. At a critical point, the correlation length diverges—as a result, one finds the scale-free behavior also observed for bird flocks. This behavior is therefore possibly a form of self-organized criticality.

scholarly journals Ma Kahana ka ‘Ike: Lessons for Community-Based Fisheries Management

2018 ◽  
Vol 10 (10) ◽  
pp. 3799 ◽  
Author(s):  
Monica Montgomery ◽  
Mehana Vaughan
Keyword(s):  
Fisheries Management ◽  
Local Governance ◽  
Local Level ◽  
Hawaiian Island ◽  
Institutional Fit ◽  
Human Environment ◽  
Self Organized ◽  
Governance Systems ◽  
Changing Role

Indigenous and place-based communities worldwide have self-organized to develop effective local-level institutions to conserve biocultural diversity. How communities maintain and adapt these institutions over time offers lessons for fostering more balanced human–environment relationships—an increasingly critical need as centralized governance systems struggle to manage declining fisheries. In this study, we focus on one long-enduring case of local level fisheries management, in Kahana, on the most populated Hawaiian island of O‘ahu. We used a mixed-methods approach including in-depth interviews, archival research, and participation in community gatherings to understand how relationships with place and local governance have endured despite changes in land and sea tenure, and what lessons this case offers for other communities engaged in restoring local-level governance. We detail the changing role of konohiki (head fishermen) in modern times (1850–1965) when they were managing local fisheries, not just for local subsistence but for larger commercial harvests. We also highlight ways in which families are reclaiming their role as caretakers following decades of state mismanagement. Considerations for fisheries co-management emerging from this research include the importance of (1) understanding historical contexts for enhancing institutional fit, (2) enduring community leadership, (3) balancing rights and responsibilities, and (4) fostering community ability to manage coastal resources through both formal and informal processes.

SELF-ORGANIZED CRITICALITY IN AN ASEXUAL MODEL?

2000 ◽  
Vol 11 (06) ◽  
pp. 1257-1262 ◽  
Author(s):  
COLIN CHISHOLM ◽  
NAEEM JAN ◽  
PETER GIBBS ◽  
AYŞE ERZAN
Keyword(s):  
Steady State ◽  
Recent Work ◽  
Critical Behavior ◽  
Critical State ◽  
Small Perturbations ◽  
Sandpile Model ◽  
Self Organized ◽  
Search For Self ◽  
Self Organized Criticality

Recent work has shown that the distribution of steady state mutations for an asexual "bacteria" model has features similar to that seen in Self-Organized Critical (SOC) sandpile model of Bak et al. We investigate this coincidence further and search for "self-organized critical" state for bacteria but instead find that the SOC sandpile critical behavior is very sensitive; critical behavior is destroyed with small perturbations effectively when the absorption of sand is introduced. It is only in the limit when the length of the genome of the bacteria tends to infinity that SOC properties are recovered for the asexual model.

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