Geospatial model of COVID-19 spreading and vaccination with event Gillespie algorithm

We have developed a mathematical model and stochastic numerical simulation for the transmission of COVID-19 and other similar infectious diseases that accounts for the geographic distribution of population density, detailed down to the level of location of individuals, and age-structured contact rates. Our analytical framework includes a surrogate model optimization process to rapidly fit the parameters of the model to the observed epidemic curves for cases, hospitalizations, and deaths. This toolkit (the model, the simulation code, and the optimizer) is a useful tool for policy makers and epidemic response teams, who can use it to forecast epidemic development scenarios in local settings (at the scale of cities to large countries) and design optimal response strategies. The simulation code also enables spatial visualization, where detailed views of epidemic scenarios are displayed directly on maps of population density. The model and simulation also include the vaccination process, which can be tailored to different levels of efficiency and efficacy of different vaccines. We used the developed framework to generate predictions for the spread of COVID-19 in the canton of Geneva, Switzerland, and validated them by comparing the calculated number of cases and recoveries with data from local seroprevalence studies.

     

The Method of R-Functions in the Solution of Elastic Problems on the Basis of Reissner's Mixed Variational Principle

A method is presented for solving boundary-value elastic problems on the basis of the variational–structural method of R-functions and Reissner's mixed variational principle. A mathematical formulation is given to problems on the deformation of elastic bodies under mixed boundary conditions and bodies interacting with smooth rigid dies. Solutions satisfying all the boundary conditions are proposed. For undetermined components of these solutions, the resolving equations are derived and their properties are studied. A posteriori estimation of numerical solutions is made. As examples, solutions are found to a problem on the stress–strain state of a short cylinder and to a contact problem on a cylinder interacting with a smooth die. A numerical method of solving such problems is analyzed for convergence, and the accuracy of the solutions is estimated.     

Excess sodium ions improve Z selectivity in Horner-Wadsworth-Emmons olefinations with the Ando phosphonate

New, improved conditions for Z selective Horner-Wadsworth-Emmons olefinations with Ando's bis(o-methylphenyl)phosphonates are reported. A combination of NaH and NaI affords Z olefins in up to >99:1 selectivity and good yields.     

Universal gates with wires in a row

Journal of Algebraic Combinatorics - Koornwinder polynomials are q-orthogonal polynomials equipped with extra five parameters and the $$B C_n$$ -type Weyl group symmetry, which were introduced by...     

Blocking the lateral film growth at the nanoscale in area-selective atomic layer deposition

Area-selective atomic layer deposition (ALD) allows the growth of highly uniform thin inorganic films on certain parts of the substrate while preventing the film growth on other parts. Although the selective ALD growth is working well at the micron and submicron scale, it has failed at the nanoscale, especially near the interface where there is growth on one side and no-growth on the other side. The reason is that methods so far solely rely on the chemical modification of the substrate, while neglecting the occurrence of lateral ALD growth at the nanoscale. Here we present a proof-of-concept for blocking the lateral ALD growth also at the nanoscale by combining the chemical surface modification with topographical features. We demonstrate that area-selective ALD of ZnO occurs by applying the diethylzinc/water ALD process on cicada wings that contain a dense array of nanoscopic pillars. The sizes of the features in the inorganic film are down to 25 nm which is, to the best of our knowledge, the smallest obtained by area-selective ALD. Importantly, our concept allows the synthesis of such small features even though the film is multiple times thicker.     

Oxidation of a laccase mediator ABTS as studied by ESI-FTICR mass spectrometry

The oxidation reaction of a laccase mediator ABTS (2,2'-azino-bis(3-ethylbenzothiazoline-6-sulfonic acid) was studied by electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry (ESI-FTICRMS). Oxidation products of ABTS were measured after reaction times that varied from a few minutes up to several days and both positive and negative ionization modes were employed. Exact mass measurements and collision-induced dissociation (CID) experiments were used to characterize the structures of the ions formed. After reacting with Trametes versicolor laccase (TvL), the radical cation form of ABTS was the main product observed by the positive ionization mode. Negative ionization mode experiments revealed that a degradation product from ABTS was formed.     

Modification of carbonic anhydrase II with acetaldehyde, the first metabolite of ethanol, leads to decreased enzyme activity

Background

Bacillus thuringiensis Cry1Aa insecticidal protein is the most active known B. thuringiensis toxin against the forest insect pest Lymantria dispar (gypsy moth), unfortunately it is also highly toxic against the non-target insect Bombyx mori (silk worm).

Results

Surface exposed hydrophobic residues over domains II and III were targeted for site-directed mutagenesis. Substitution of a phenylalanine residue (F328) by alanine reduced binding to the Bombyx mori cadherin by 23-fold, reduced biological activity against B. mori by 4-fold, while retaining activity against Lymantria dispar.

Conclusion

The results identify a novel receptor-binding epitope and demonstrate that virtual elimination of binding to cadherin BR-175 does not completely remove toxicity in the case of B. mori.     

Enhanced hydrophobicity of rough polymer surfaces

Molecular dynamics simulations were used to study the effect of periodic roughness of PE and PVC polymer surfaces on the hydrophobicity. Pillars of different lateral dimensions and heights were derived from flat crystalline surfaces, and the results of nanoscale simulations on the structured surfaces were compared with theoretical predictions of the Wenzel and Cassie equations. Hydrophobicity increased on all rough surfaces, but the increase was greater on the structured PE surfaces because of the larger water contact angle on the flat PE surface than the corresponding PVC surface. Equally sized pillar structures on the two polymers resulted in different equilibrium wetting geometries. Composite contacts were observed on rough PE surfaces, and the contact angle increased with decreasing contact area between the solid and the liquid. Opposite results were obtained for rough PVC surfaces; the contact angle increased with the solid-liquid contact area, in agreement with Wenzel's equation. However, the composite contact was observed if the energies of the wetted and composite contacts were almost equal. Good agreement was obtained between the simulated contact angles and equilibrium droplet shapes and the theories but there were also some limitations of the nanoscale simulations.     

Straightforward carbamoylation of nucleophilic compounds employing organic azides, phosphines, and aqueous trialkylammonium hydrogen carbonate

In the presence of aqueous trialkylammonium hydrogen carbonate, the Staudinger reaction leads to the intermediate formation of the corresponding isocyanate, which, in turn, reacts further with a nucleophilic reagent also present in the mixture and results in carbamoylation with good yield. On the basis of this reaction a practical carbamoylation procedure was devised and a comparative study on suitability of different solvents and phosphorus (III) derivatives for carbamoylation reaction was conducted. The versatility of the method was demonstrated by examples with different classes of nucleophilic compounds that included the aminomethyl resin and natural compounds that display poor solubility in organic solvents.     

Facile aqueous synthesis and stabilization of nearly monodispersed gold nanospheres by poly(L‐proline)

A facile strategy is developed to synthesize Au nanoparticles (Au‐NPs) using water‐soluble poly(L ‐proline) (PLP). The synthesized NPs were characterized by TEM, FTIR and NMR spectroscopy, thermogravimetric analysis, and circular dichroism. It was found that PLP has a “dual” role as an efficient reductant of Au(III) and simultaneously as a stabilizing agent of Au‐NPs. The influence of PLP molecular weight, temperature, initial Au(III) concentration, and Au(III)/PLP molar ratio on the size and dispersity of Au‐NPs is examined. It was found that the unique extended secondary structure of PLP II resulted in the facile formation of highly crystalline Au‐NPs in water at a very low Au(III)/PLP molar ratio. These Au‐NPs have the smallest dimensions and size distributions among NPs synthesized so far by polymeric materials in aqueous media, and exhibit enduring colloidal stability. Therefore, by utilizing biocompatible and benign materials in water, we managed to obtain Au‐NPs, so as the final product is ready‐to‐use for biomedical applications. © 2013 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2013