Miniaturized Sequencing Gel System for Quick Analysis of DNA by Hydroxyl Radical Cleavage

We described a simple and quick miniaturized sequencing gel system for DNA analysis. Two major modifications were made to the previously reported miniaturized DNA sequencing gel system to achieve high-resolution hydroxyl radical cleavage analysis: including formamide in the miniaturized gel and providing uniform heating during electrophoresis. Our method enables one to reduce the cost for chemicals and to significantly reduce electrophoresis time. Furthermore, minimal gel handling simplifies the entire process. We show that the resolution of DNA fragments obtained by hydroxyl radical cleavage for the miniaturized gel is similar to that of a large conventional sequencing gel.     

Dynamic mechanical investigations of different substituted cellulose o-silyl ethers

In contrast to many cellulose derivatives, the cellulose O-silyl ethers with bulky side groups exhibit scarcely a change in glass transition temperature by a variation of the degree of substitution (DS) or degree of polymerization (DP) or by introducing phenyl carbamate groups for the remaining hydroxyls along the main chain. However, a substitution of these hydroxyls by flexible acetate groups lowers the glass transition temperature considerably. The secondary dispersion (relaxation) behavior is strongly influenced by the various substituents and can be correlated to specific motions of the molecules. The dynamic mechanical properties are also dependent on the kind of preconditioning of the samples.     

Dendritic analogues of engineering plastics - a general one-step synthesis of dendritic polyaryl ethers

The first general single-step route to dendritic or cascade polyaryl ethers analogous to common linear polyaryl ethers is described. The sodium salts of four AB₂ monomers each containing a single phenolic hydroxyl group and two aryl fluorides activated toward nucleophilic substitution by carbonyl, sulphonyl, or tetrafluorophenyl moieties are shown to polymerize in hot N, N-dimethylacetamide. The products are high molecular weight polymers (7000 < M_n < 36000), have narrow polydispersities (1.50 < M_w/M_n < 4.50), and are highly soluble in organic solvents. The molecular weights of two of the polymers increase with monomer concentration. The polymers are thermally stable (500 °C under N₂) and have glass transition temperatures ranging from 135 to 231 °C.     

Numerical approach for generic three-phase flow based on cut-cell and ghost fluid methods

In this paper, we introduce numerical methods that can simulate complex multiphase flows. The finite volume method, applying Cartesian cut-cell is used in the computational domain, containing fluid and solid, to conserve mass and momentum. With this method, flows in and around any geometry can be simulated without complex and time consuming meshing. For the fluid region, which involves liquid and gas, the ghost fluid method is employed to handle the stiffness of the interface discontinuity problem. The interaction between each phase is treated simply by wall function models or jump conditions of pressure, velocity and shear stress at the interface. The sharp interface method “coupled level set (LS) and volume of fluid (VOF)” is used to represent the interface between the two fluid phases. This approach will combine some advantages of both interface tracking/capturing methods, such as the excellent mass conservation from the VOF method and good accuracy of interface normal computation from the LS function. The first coupled LS and VOF will be generated to reconstruct the interface between solid and the other materials. The second will represent the interface between liquid and gas.     

On the rationalization of a sum of surds

A program to rationalize the equations ∑⁵_i = 1√y_i = 0 and ∑⁶_i = 1√y_i= 0 is described; here y_i are indeterminates. Complete answers are given for these two cases, and for the elementary cases where the sum consists of three or four terms. The rationalization utilizes a family of algorithms treating the algebra of symmetric functions. This is the first step in the construction of a comprehensive computer package—SYMPACK—designed to carry out all useful manipulations of the five basic symmetric functions. The contents of this package, as currently envisaged, is given in outline.     

Stochastic programming and the option of doing it differently

Option theory and stochastic programming are tightly linked. Most options can be analyzed in both frameworks, and the two approaches support each other in many slightly more complex situations. But this similarity hides some central differences in perspective. This short note tries to focus on one of these, namely the fact that option theory can be applied only to options already identified, while stochastic programming is able to help us find options in contexts where it is not at all clear what they are, and where finding might be more important than valuing.     

Molecular organization in MAPLE‐deposited conjugated polymer thin films and the implications for carrier transport characteristics

The morphological structure of poly(3‐hexylthiophene) (P3HT) thin films deposited by both Matrix Assisted Pulsed Laser Evaporation (MAPLE) and solution spin‐casting methods are investigated. The MAPLE samples possessed a higher degree of disorder, with random orientations of polymer crystallites along the side‐chain stacking, π–π stacking, and conjugated backbone directions. Moreover, the average molecular orientations and relative degrees of crystallinity of MAPLE‐deposited polymer films are insensitive to the chemistries of the substrates onto which they were deposited; this is in stark contrast to the films prepared by the conventional spin‐casting technique. Despite the seemingly unfavorable molecular orientations and the highly disordered morphologies, the in‐plane charge carrier transport characteristics of the MAPLE samples are comparable to those of spin‐cast samples, exhibiting similar transport activation energies (56 vs. 54 meV) to those reported in the literature for high mobility polymers. © 2016 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2017 , 55, 39–48     

Radiation damage in polymer films from grazing‐incidence X‐ray scattering measurements

Grazing‐incidence X‐ray scattering (GIXS) is widely used to analyze the crystallinity and nanoscale structure in thin polymer films. However, ionizing radiation will generate free radicals that initiate crosslinking and/or chain scission, and structural damage will impact the ordering kinetics, thermodynamics, and crystallinity in many polymers. We report a simple methodology to screen for beam damage that is based on lithographic principles: films are exposed to patterns of X‐ray radiation, and changes in polymer structure are revealed by immersing the film in a solvent that dissolves the shortest chains. The experiments are implemented with high throughput using the standard beam line instrumentation and a typical GIXS configuration. The extent of damage (at a fixed radiation dose) depends on a range of intrinsic material properties and experimental variables, including the polymer chemistry and molecular weight, exposure environment, film thickness, and angle of incidence. The solubility switch for common polymers is detected within 10–60 s at ambient temperature, and we verified that this first indication of damage corresponds with the onset of network formation in glassy polystyrene and a loss of crystallinity in polyalkylthiophenes. Therefore, grazing‐incidence X‐ray “patterning” offers an efficient approach to determine the appropriate data acquisition times for any GIXS experiment. © 2016 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2016 , 54, 1074–1086     

Explicit bounds and heuristics on class numbers in hyperelliptic function fields

In this paper, we provide tight estimates for the divisor class number of hyperelliptic function fields. We extend the existing methods to any hyperelliptic function field and improve the previous bounds by a factor proportional to with the help of new results. We thus obtain a faster method of computing regulators and class numbers. Furthermore, we provide experimental data and heuristics on the distribution of the class number within the bounds on the class number. These heuristics are based on recent results by Katz and Sarnak. Our numerical results and the heuristics imply that our approximation is in general far better than the bounds suggest.

     

Ion-beam sculpting time scales

A study of ion sculpting dynamics in SiO2 and SiN using periodically pulsed ion beams reveals material transport that depends strongly on the time structure of the pulsed beams. It is found that significant nanoscale matter transport can occur over second long time scales after the ion beam has been extinguished. A simple phenomenological model described the dynamics of ion beam sculpting in terms of two material time scales. The model accounts for the surprising observation of enhanced matter transport affected by pulsed ion beams over continuous ion beam exposure.