Three-dimensional patchy lattice model: ring formation and phase separation

We investigate the structural and thermodynamic properties of a model of particles with $2$ patches of type $A$ and $10$ patches of type $B$. Particles are placed on the sites of a face centered cubic lattice with the patches oriented along the nearest neighbor directions. The competition between the self-assembly of chains, rings and networks on the phase diagram is investigated by carrying out a systematic investigation of this class of models, using an extension of Wertheim's theory for associating fluids and Monte Carlo numerical simulations. We varied the ratio $r\equiv\epsilon_{AB}/\epsilon_{AA}$ of the interaction between patches $A$ and $B$, $\epsilon_{AB}$, and between $A$ patches, $\epsilon_{AA}$ ($\epsilon_{BB}$ is set to $0$) as well as the relative position of the $A$ patches, i.e., the angle $\theta$ between the (lattice) directions of the $A$ patches. We found that both $r$ and $\theta$ ($60^\circ,90^\circ,$ or $120^\circ$) have a profound effect on the phase diagram. In the empty fluid regime ($r < 1/2$) the phase diagram is re-entrant with a closed miscibility loop. The region around the lower critical point exhibits unusual structural and thermodynamic behavior determined by the presence of relatively short rings. The agreement between the results of theory and simulation is excellent for $\theta=120^\circ$ but deteriorates as $\theta$ decreases, revealing the need for new theoretical approaches to describe the structure and thermodynamics of systems dominated by small rings.Comment: 26 pages, 10 figure

Crossover Scales at the Critical Points of Fluids with Electrostatic Interactions

Criticality in a fluid of dielectric constant D that exhibits Ising-type behavior is studied as additional electrostatic (i.e., ionic) interactions are turned on. An exploratory perturbative calculation is performed for small ionicity as measured by the ratio of the electrostatic energy to the strength of the short-range nonionic (i.e., van der Waals) interactions in the uncharged fluid. With the aid of distinct transformations for the short-range and for the Coulombic interactions, an effective Hamiltonian with coefficients depending on the ionicity is derived at the Debye-Hueckel limiting-law level for a fully symmetric model. The crossover between classical (mean-field) and Ising behavior is then estimated using a Ginzburg criterion. This indicates that the reduced crossover temperature depends only weakly on the ionicity (and on the range of the nonionic potentials); however, the trends do correlate with the, much stronger, dependence observed experimentally.Comment: 25 pages, 4 figure; submitted to J. Chem. Phy

The effect of polydispersity on the ordering transition of adsorbed self-assembled rigid rods

Extensive Monte Carlo simulations were carried out to investigate the nature of the ordering transition of a model of adsorbed self-assembled rigid rods on the bonds of a square lattice [Tavares et. al., Phys. Rev E 79, 021505 (2009)]. The polydisperse rods undergo a continuous ordering transition that is found to be in the two-dimensional Ising universality class, as in models where the rods are monodisperse. This finding is in sharp contrast with the recent claim that equilibrium polydispersity changes the nature of the phase transition in this class of models [L`opez et. al., Phys. Rev E 80, 040105(R)(2009)].Comment: 19 pages, 5 figure

The nature of the ordered phase of the confined self-assembled rigid rod model

We investigate the nature of the ordered phase and the orientational correlations between adjacent layers of the confined three-dimensional self-assembled rigid rod model, on the cubic lattice. We find that the ordered phase at finite temperatures becomes uniaxial in the thermodynamic limit, by contrast to the ground state (partial) order where the orientation of the uncorrelated layers is perpendicular to one of the three lattice directions. The increase of the orientational correlation between layers as the number of layers increases suggests that the unconfined model may also exhibit uniaxial ordering at finite temperatures.Comment: 8 Pates, 10 Figures. Submitted to J. Chem. Phys.8 pages (10 figures

Pathways to folding, nucleation events and native geometry

We perform extensive Monte Carlo simulations of a lattice model and the Go potential to investigate the existence of folding pathways at the level of contact cluster formation for two native structures with markedly different geometries. Our analysis of folding pathways revealed a common underlying folding mechanism, based on nucleation phenomena, for both protein models. However, folding to the more complex geometry (i.e. that with more non-local contacts) is driven by a folding nucleus whose geometric traits more closely resemble those of the native fold. For this geometry folding is clearly a more cooperative process.Comment: Accepted in J. Chem. Phy

Newspaper covers as display windows in a pandemic season: analysis of three Portuguese daily newspapers

Neste artigo, que é uma síntese de um estudo realizado no MediaLab CIES-Iscte , parte-se da ideia de pandemia enquanto evento mediático e da mediatização como aspeto estruturante da narrativa jornalística, para propor três modelos de montras jornalísticas – de saldos, de produto e de diversidade em que se considera as características e critérios de noticiabilidade adotados por cada um dos veículos analisados. A análise englobou três dimensões: a distribuição do conteúdo no espaço físico e hierárquico do jornal (manchete, centro e periferia); as marcas, que podem ser palavras destacadas nos títulos e chamadas; e os recursos imagéticos utilizados. A pesquisa teve em conta 90 capas dos jornais Correio da Manhã, Jornal de Notícias e Público publicadas durante os primeiros 30 dias de cobertura da pandemia em Portugal, divididos em três ciclos: o primeiro, entre a divulgação dos primeiros casos identificados de COVID-19 em Portugal (3 de março de 2020) e a declaração do estado de alerta em Portugal (12 de março); o segundo, desde o encerramento das escolas (13 de março) à véspera da notícia do decreto presidencial que autoriza ao governo decretar estado de emergência (18 de março); o terceiro, da repercussão do decreto presidencial (19 de março) até à véspera da aprovação do decreto de emergência na Assembleia da República (1 de abril). O estudo conclui que as narrativas nas capas dos jornais são diferentes entre si e afetadas pelos modelos de montras, os quais refletem a dicotomia entre os interesses jornalísticos e os interesses comerciais, questionando se o público-modelo que norteia a construção das diferentes montras é apenas um, entre vários possíveis, “retrato-robô”, para fazer «vender» jornais, ou um claro identificador sociocultural dos públicos da imprensa escrita portuguesa?info:eu-repo/semantics/publishedVersio

Interfacial motion in flexo- and order-electric switching between nematic filled states

We consider a nematic liquid crystal, in coexistence with its isotropic phase, in contact with a substrate patterned with rectangular grooves. In such a system, the nematic phase may fill the grooves without the occurrence of complete wetting. There may exist multiple (meta)stable filled states, each characterised by the type of distortion (bend or splay) in each corner of the groove and by the shape of the nematic-isotropic interface, and additionally the plateaux that separate the grooves may be either dry or wet with a thin layer of nematic. Using numerical simulations, we analyse the dynamical response of the system to an externally- applied electric field, with the aim of identifying switching transitions between these filled states. We find that order-electric coupling between the fluid and the field provides a means of switching between states where the plateaux between grooves are dry and states where they are wet by a nematic layer, without affecting the configuration of the nematic within the groove. We find that flexoelectric coupling may change the nematic texture in the groove, provided that the flexoelectric coupling differentiates between the types of distortion at the corners of the substrate. We identify intermediate stages of the transitions, and the role played by the motion of the nematic-isotropic interface. We determine quantitatively the field magnitudes and orientations required to effect each type of transition.Comment: 14 pages, 12 fig

The condensation and ordering of models of empty liquids

We consider a simple model consisting of particles with four bonding sites ("patches"), two of type A and two of type B, on the square lattice, and investigate its global phase behavior by simulations and theory. We set the interaction between B patches to zero and calculate the phase diagram as the ratio between the AB and the AA interactions, {\epsilon}^\star_AB, varies. In line with previous work, on three-dimensional off-lattice models, we show that the liquid-vapor phase diagram exhibits a re-entrant or "pinched" shape for the same range of \epsilon^\star_AB, suggesting that the ratio of the energy scales - and the corresponding empty fluid regime - is independent of the dimensionality of the system and of the lattice structure. In addition, the model exhibits an order-disorder transition that is ferromagnetic in the re-entrant regime. The use of low-dimensional lattice models allows the simulation of sufficiently large systems to establish the nature of the liquid-vapor critical points and to describe the structure of the liquid phase in the empty fluid regime, where the size of the "voids" increases as the temperature decreases. We have found that the liquid-vapor critical point is in the 2D Ising universality class, with a scaling region that decreases rapidly as the temperature decreases. The results of simulations and theoretical analysis suggest that the line of order-disorder transitions intersects the condensation line at a multicritical point at zero temperature and density, for patchy particle models with a re-entrant, empty fluid, regime.Comment: 29 pagres, 9 figure