Computing Integrated Information (Φ) in Discrete Dynamical Systems with Multi-Valued Elements

Integrated information theory (IIT) provides a mathematical framework to characterize the cause-effect structure of a physical system and its amount of integrated information (Φ). An accompanying Python software package (“PyPhi”) was recently introduced to implement this framework for the causal analysis of discrete dynamical systems of binary elements. Here, we present an update to PyPhi that extends its applicability to systems constituted of discrete, but multi-valued elements. This allows us to analyze and compare general causal properties of random networks made up of binary, ternary, quaternary, and mixed nodes. Moreover, we apply the developed tools for causal analysis to a simple non-binary regulatory network model (p53-Mdm2) and discuss commonly used binarization methods in light of their capacity to preserve the causal structure of the original system with multi-valued elements.     

Study of spatial inhomogeneity in inverted all‐polymer solar cells: Effect of solvent and annealing

The efficiency optimization of bulk heterojunction solar cells requires the control of the local active materials arrangement in order to obtain the best compromise between efficient charge generation and charge collection. Here, we investigate the large scale (10–100 μm) inhomogeneity of the photoluminescence (PL) and the external quantum efficiency (EQE) in inverted all‐polymer solar cells (APSC) with regioregular poly(3‐hexylthiophene) (P3HT):poly(9,9‐dioctylfluorene‐co‐benzothiadiazole) (F8BT) active blends. The morphology and the local active polymer mixing are changed by depositing the active layer from four different solvents and by thermal annealing. The simultaneous PL and EQE mapping allowed us to inspect the effects of local irregularities of active layer thickness, polymer mixing, polymer aggregation on the charge generation and collection efficiencies. In particular, we show that the increase of the solvent boiling point affects the EQE non‐uniformity due to thickness fluctuations, the density non‐uniformity of rrP3HT aggregate phase, and the blend components clustering. The thermal annealing leads to a general improvement of EQE and to an F8BT clustering in all the samples with locally decrease of the EQE. We estimate that the film uniformity optimization can lead to a total EQE improvement between 2.7 and 6.3 times. © 2015 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2015 , 53, 804–813     

Quantum curves and q-deformed Painlevé equations

Letters in Mathematical Physics - We propose that the grand canonical topological string partition functions satisfy finite-difference equations in the closed string moduli. In the case of genus...     

Convergence of solutions for the fractional Cahn–Hilliard system

This paper deals with the Cauchy–Dirichlet problem for the fractional Cahn–Hilliard equation. The main results consist of global (in time) existence of weak solutions, characterization of parabolic smoothing effects (implying under proper condition eventual boundedness of trajectories), and convergence of each solution to a (single) equilibrium. In particular, to prove the convergence result, a variant of the so-called ?ojasiewicz–Simon inequality is provided for the fractional Dirichlet Laplacian and (possibly) non-analytic (but $C^1$) nonlinearities.     

Maximal Subrings and Covering Numbers of Finite Semisimple Rings

We classify the maximal subrings of the ring of n×n matrices over a finite field, and show that these subrings may be divided into three types. We also describe all of the maximal subrings of a finite semisimple ring, and categorize them into two classes. As an application of these results, we calculate the covering number of a finite semisimple ring.     

A certain critical density property for invariant Harnack inequalities in H-type groups

We consider second order linear degenerate elliptic operators which are elliptic with respect to horizontal directions generating a stratified algebra of H-type. Extending a result by Gutiérrez and Tournier (2011) for the Heisenberg group, we prove a critical density estimate by assuming a condition of Cordes–Landis type. We then deduce an invariant Harnack inequality for the non-negative solutions from a result by Di Fazio, Gutiérrez, and Lanconelli (2008).     

Generalised continuation by means of right limits

Several theories have been proposed to generalise the concept of analytic continuation to holomorphic functions of the disc for which the circle is a natural boundary. Elaborating on Breuer-Simon’s work on right limits of power series, Baladi-Marmi-Sauzin recently introduced the notion of renascent right limit and rrl-continuation. We discuss a few examples and consider particularly the classical example of Poincaré simple pole series in this light. These functions are represented in the disc as series of infinitely many simple poles located on the circle; they appear, for instance, in small divisor problems in dynamics. We prove that any such function admits a unique rrl-continuation, which coincides with the function obtained outside the disc by summing the simple pole expansion. We also discuss the relation with monogenic regularity in the sense of Borel.     

Photochemical Bromination of 2,5-Dimethylbenzoic Acid as Key Step of an Improved Alkyne-Functionalized Blue Box Synthesis**

Cyclobis(paraquat-p-phenylene), also known as “blue box”, is a highly electron-deficient macrocycle, widely used as a molecular receptor for small electron-rich molecules. Inserting a reactive functional group onto the molecular structure of this cyclophane is paramount for its inclusion into complex architectures. To this aim, including an alkyne moiety would be ideal, because it can participate in click reactions. However, the synthesis of such alkyne-functionalized cyclophane suffers from several drawbacks: the use of toxic and expensive CCl₄, the need for high-pressure reactors, and overall low yield. We have revised the existing synthesis of this cyclophane derivative bearing an alkyne moiety, to overcome all these limitations. In particular, photochemical radical bromination is adopted to obtain a sensitive intermediate. We demonstrated that the synthesized host molecule can be functionalized via click reactions and take part in radical-radical interactions. Our work makes a key functionalized paraquat macrocycle more accessible, facilitating the development of novel redox-responsive systems.     

Combining Different Docking Engines and Consensus Strategies to Design and Validate Optimized Virtual Screening Protocols for the SARS-CoV-2 3CL Protease

The 3CL-Protease appears to be a very promising medicinal target to develop anti-SARS-CoV-2 agents. The availability of resolved structures allows structure-based computational approaches to be carried out even though the lack of known inhibitors prevents a proper validation of the performed simulations. The innovative idea of the study is to exploit known inhibitors of SARS-CoV 3CL-Pro as a training set to perform and validate multiple virtual screening campaigns. Docking simulations using four different programs (Fred, Glide, LiGen, and PLANTS) were performed investigating the role of both multiple binding modes (by binding space) and multiple isomers/states (by developing the corresponding isomeric space). The computed docking scores were used to develop consensus models, which allow an in-depth comparison of the resulting performances. On average, the reached performances revealed the different sensitivity to isomeric differences and multiple binding modes between the four docking engines. In detail, Glide and LiGen are the tools that best benefit from isomeric and binding space, respectively, while Fred is the most insensitive program. The obtained results emphasize the fruitful role of combining various docking tools to optimize the predictive performances. Taken together, the performed simulations allowed the rational development of highly performing virtual screening workflows, which could be further optimized by considering different 3CL-Pro structures and, more importantly, by including true SARS-CoV-2 3CL-Pro inhibitors (as learning set) when available.     

Factorization of Integer-Valued Polynomials with Square-Free Denominator

We describe an algorithm to compute the different factorizations of a given image primitive integer-valued polynomial f(X) = g(X)/d ∈ ?[X], where g ∈ ?[X] and d ∈ ? is square-free, assuming that the factorizations of g(X) in ?[X] and d in ? are known. We translate this problem into a combinatorial one.