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  • 1
    Electronic Resource
    Electronic Resource
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 100 (1994), S. 3175-3180 
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: The asymmetric next-nearest neighbor (NNN) Ising model has been studied for describing the self-diffusion of adsorbate atoms at low temperature, furthermore adding a relevant ingredient in such a regime, i.e., a finite value Q for the trapping potential barrier. The Monte Carlo technique leads to the components of the (tracer) diffusion coefficient. An interesting feature is seen: a "V–Λ transition'' occurs at half-coverage (c=0.5) when the temperature is lowered. The activation energy (obtained from an Arrhenius plot) is seen to be varying as a function of coverage, and is not symmetrical with respect to c=0.5. The anisotropy of the diffusion and the change in its pattern as a function of the temperature and coverage are presented and discussed. Monte Carlo snapshots are shown at various coverage and temperature values.
    Type of Medium: Electronic Resource
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  • 2
    Electronic Resource
    Electronic Resource
    Springer
    European biophysics journal 16 (1988), S. 39-44 
    ISSN: 1432-1017
    Keywords: Lipid monolayers ; phase transitions ; Ising model
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Physics
    Notes: Abstract A microscopic model of a lipid monolayer is proposed. It includes, within a single scheme, the following factors which are considered to be essential in phase transitions in lipid systems: formation of gauche rotamers, interactions between polar heads, interactions between hydrocarbon chains (depending on their conformation) and changes in the energy of the system due to a directional ordering of the chains. Phase diagrams are constructed and discussed and it is shown how the phase diagrams are modified by alterations of these parameters and the length of the hydrocarbon chains.
    Type of Medium: Electronic Resource
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  • 3
    Electronic Resource
    Electronic Resource
    Springer
    The European physical journal 10 (1999), S. 181-186 
    ISSN: 1434-6036
    Keywords: PACS. 87.10.+e General biophysics - 02.70.Lq Monte-Carlo and statistical methods - 07.05.Tp Computer modeling and simulation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Physics
    Notes: Abstract: We propose a model suitable for investigating the conditions under which a population, adapted to a given environment, may colonize a new neighbouring, spatially separated, habitat. We find out how similar the two regions must be for such a colonization to succeed and what will be the spatial distribution of genetic pools of the two populations after the process. It is found that between the two populations each adapted to the different region, a hybrid zone, characterized by increased heterozygosity, may be formed. The dependence of the shape of the hybrid zone on the external (environmental) parameters is determined. When the differences between the two regions are significant, the populations are separated by a depopulated zone. We show that the conditions in the colonized habitat influence the genetic pool of the population living in the first region. Computer simulations based on the standard Monte Carlo technique are used.
    Type of Medium: Electronic Resource
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  • 4
    Electronic Resource
    Electronic Resource
    Springer
    The European physical journal 11 (1999), S. 369-375 
    ISSN: 1434-6036
    Keywords: PACS. 02.70.Lq Monte-Carlo and statistical methods - 66.10.Cb Diffusion and thermal diffusion - 74.72.Bk Y-based cuprates
    Source: Springer Online Journal Archives 1860-2000
    Topics: Physics
    Notes: Abstract: A method for estimating, via the Monte-Carlo simulation, the most often realized diffusion mechanisms in 2D ordered structures is presented. Taking as an example the diffusion of oxygen ions in high temperature superconductor we propose several diffusion mechanisms and show to what extent they depend on the temperature and concentration of the diffusing particles. Our results are compared with the ones proposed earlier on the basis of energy arguments. We find also additional trajectories, different from those earlier reported in that system.
    Type of Medium: Electronic Resource
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  • 5
    Electronic Resource
    Electronic Resource
    Springer
    The European physical journal 11 (1999), S. 687-690 
    ISSN: 1434-6036
    Keywords: PACS. 87.10.+e General theory and mathematical aspects - 02.70.Lq Monte-Carlo and statistical methods
    Source: Springer Online Journal Archives 1860-2000
    Topics: Physics
    Notes: Abstract: We propose, and solve via Monte-Carlo simulation, a model describing evolution of population subject to harmful mutations. The habitat changes periodically. The evolution of two, initially identical, populations is compared. One without any external ingerence and the second in which we eliminate all individuals which are ill-fitted to the changed environment (eugenics). We show that although in the short run the individuals in the latter are better adapted and live longer, after some more changes of the environment, the populations with eugenics become extinct, while the others live on.
    Type of Medium: Electronic Resource
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  • 6
    Electronic Resource
    Electronic Resource
    Springer
    The European physical journal 13 (2000), S. 791-796 
    ISSN: 1434-6036
    Keywords: PACS. 05.10.Ln Monte Carlo methods - 87.23.Cc Population dynamics and ecological pattern formation - 87.23.Kg Dynamics of evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Physics
    Notes: Abstract: Using a previously introduced model (Refs. [9, 10]) of biological evolution, we study the role of the reproduction pattern on the fate of an evolving population. Each individual is under the selectional pressure from the environment and random harmful mutations. The habitat (“climate") is changing periodically. Evolution of populations following three reproduction patterns are compared - an asexual one (without recombination) and two with recombination - asexual (meiotic parthenogenesis) and sexual. We show, via Monte-Carlo simulations, that sexual reproduction leads to a better adaptation to the environment, slightly better survival rates for the individuals and higher probability that the population will not become extinct in difficult external conditions. The benefits of sexual reproduction are enhanced by higher birth rates and lower mutation rates. In the case of low birth rates and high mutation rates there is a small preference for the meiotic parthenogenesis.
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  • 7
    Electronic Resource
    Electronic Resource
    Springer
    The European physical journal 17 (2000), S. 329-332 
    ISSN: 1434-6036
    Keywords: PACS. 87.10.+e General theory and mathematical aspects - 02.70.Lq Monte Carlo and statistical methods
    Source: Springer Online Journal Archives 1860-2000
    Topics: Physics
    Notes: Abstract: We discuss a model of population dynamics under selection pressure from a changing environment. The population, subject to mutations, is composed of diploidal organisms reproducing quasi-sexually (two parents, recombination but no sexes) and with overlapping generations. Two cases are considered - in one we do not influence the dynamics of the population, while in the other we perform eugenics, i.e. we eliminate all individuals which have phenotypes not conforming to the optimal one at the place where the change has been made. We show that eugenics reduces greatly genetic diversity of the population, increases the percentage of homozygotes and therefore leads to a population badly prepared to cope with the next changes of the environment. The present paper is an extension of our previous work (Ref. [9]).
    Type of Medium: Electronic Resource
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  • 8
    Publication Date: 1988-05-01
    Print ISSN: 0175-7571
    Electronic ISSN: 1432-1017
    Topics: Biology , Physics
    Published by Springer
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  • 9
    Publication Date: 2016-09-20
    Description: Mitochondrial diseases are frequently associated with mutations in mitochondrial DNA (mtDNA). In most cases, mutant and wild-type mtDNAs coexist, resulting in heteroplasmy. The selective elimination of mutant mtDNA, and consequent enrichment of wild-type mtDNA, can rescue pathological phenotypes in heteroplasmic cells. Use of the mitochondrially targeted zinc finger-nuclease (mtZFN) results in degradation of mutant mtDNA through site-specific DNA cleavage. Here, we describe a substantial enhancement of our previous mtZFN-based approaches to targeting mtDNA, allowing near-complete directional shifts of mtDNA heteroplasmy, either by iterative treatment or through finely controlled expression of mtZFN, which limits off-target catalysis and undesired mtDNA copy number depletion. To demonstrate the utility of this improved approach, we generated an isogenic distribution of heteroplasmic cells with variable mtDNA mutant level from the same parental source without clonal selection. Analysis of these populations demonstrated an altered metabolic signature in cells harbouring decreased levels of mutant m.8993T〉G mtDNA, associated with neuropathy, ataxia, and retinitis pigmentosa (NARP). We conclude that mtZFN-based approaches offer means for mtDNA heteroplasmy manipulation in basic research, and may provide a strategy for therapeutic intervention in selected mitochondrial diseases.
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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  • 10
    Publication Date: 2015-05-29
    Description: The effects of confinement on colloidal self-assembly in the case of fixed number of confined particles are studied in the one dimensional lattice model solved exactly in the grand canonical ensemble (GCE) in Pȩkalski et al. [J. Chem. Phys. 142 , 014903 (2015)]. The model considers a pair interaction defined by a short-range attraction plus a longer-range repulsion. We consider thermodynamic states corresponding to self-assembly into clusters. Both fixed and adaptive boundaries are studied. For fixed boundaries, there are particular states in which, for equal average densities, the number of clusters in the GCE is larger than in the canonical ensemble. The dependence of pressure on density has a different form when the system size changes with fixed number of particles and when the number of particles changes with fixed size of the system. In the former case, the pressure has a nonmonotonic dependence on the system size. The anomalous increase of pressure for expanding system is accompanied by formation of a larger number of smaller clusters. In the case of elastic confining surfaces, we observe a bistability, i.e., two significantly different system sizes occur with almost the same probability. The mechanism of the bistability in the closed system is different to that of the case of permeable walls, where the two equilibrium system sizes correspond to a different number of particles.
    Print ISSN: 0021-9606
    Electronic ISSN: 1089-7690
    Topics: Chemistry and Pharmacology , Physics
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