Spot addressing for microarray images structured in hexagonal grids

In this work, an efficient method for spot addressing in images, which are generated by the scanning of hexagonal structured microarrays, is proposed. Initially, the blocks of the image are separated using the projections of the image. Next, all the blocks of the image are processed separately for the detection of each spot. The spot addressing procedure begins with the detection of the high intensity objects, which are probably the spots of the image. Next, the Growing Concentric Hexagon algorithm, which uses the properties of the hexagonal grid, is introduced for the detection of the non-hybridized spots. Finally, the Voronoi diagram is applied to the centers of the detected spots for the gridding of the image. The method is evaluated using spots generated from the scanning of the Beadchip of Illumina, which is used for the detection of Single Nucleotide Polymorphisms in the human genome, and uses hexagonal structure for the location of the spots. For the evaluation, the detected centers for each of the spot in the image are compared to the centers of the annotation, obtaining up to 98% accuracy for the spot addressing procedure.     

Fast Minor Testing in Planar Graphs

Minor Containment is a fundamental problem in Algorithmic Graph Theory used as a subroutine in numerous graph algorithms. A model of a graph H in a graph G is a set of disjoint connected subgraphs of G indexed by the vertices of H, such that if {u,v} is an edge of H, then there is an edge of G between components C _u and C _v . A graph H is a minor of G if G contains a model of H as a subgraph. We give an algorithm that, given a planar n-vertex graph G and an h-vertex graph H, either finds in time $\mathcal{O}(2^{\mathcal{O}(h)} \cdot n +n^{2}\cdot\log n)$ a model of H in G, or correctly concludes that G does not contain H as a minor. Our algorithm is the first single-exponential algorithm for this problem and improves all previous minor testing algorithms in planar graphs. Our technique is based on a novel approach called partially embedded dynamic programming.     

Effect of Drying Methods on Dyeing Capacity of Dyestuff Plant Materials

This article presents a study of the effect of drying methods on dyeing capacity of widespread European flora dyestuff plant materials. The natural colorants, derived from the selected plant materials, were applied on chemical pulp in order to examine their dyeability. In this work, three different drying methods were examined—the natural, the air-, and the freeze-drying method—in various conditions. The plant materials that were dried naturally show weak dyeing results in comparison with the air- and freeze-dried materials. Freeze drying significantly improved the dyeing capacity of dyestuff plant materials with high initial moisture content. On the other hand, air drying at low temperature and high relative humidity improved the dyeing capacity of plant materials with low initial moisture content.     

Towards the Establishment of a Continuous Nondestructive Monitoring Technique for Fresh Concrete

Despite the fact that concrete is the most widely used construction material, conventional techniques for the estimation of the mechanical properties are only applicable to the hardened material. Moreover, concerning the fresh concrete examination, the already existing techniques provide only qualitative information, are not representative over the full time period of curing, setting and hardening or have limited accuracy and repeatability. In this study, the acoustic emission (AE) technique is employed in order to investigate the activity within fresh concrete as early as a few minutes after mixing. Several processes like settlement, segregation, formation and migration of air bubbles, as well as formation of hydrates produce AEs which so far have not been properly examined in literature. The first and foremost goal is to check the capacity of the new AE setup to record emissions earlier than previous studies (just after casting). The next goal concerns the possibility to characterize the different types of emissions relatively to their original source mechanism while the final goal would be the investigation of possible correlations between the early age acoustic activity and the final mechanical properties. For this reason, an AE setup is applied utilizing the favorable wave transmission properties of the metal casting molds, which act as a sort of waveguide. After validating its sensitivity, several laboratory tests are performed in concrete with varying water and aggregate content. It is found that the rate of AE activity follows trends similar to the typical hydration curves known from literature and is also indicative of the mix parameters. Finally, it should be mentioned that it is the first study that exploits the acoustic activity as early as the moment of mixing while apart from the number of emissions which is usually examined, the monitoring includes waveform parameters that show strong characterization potential.     

Effect of water aging on the mechanical properties of flax fiber/bio-based resin composites

Present work investigates the effect of hydrothermal aging of flax fiber-reinforced bio-based epoxy resin laminates on the mechanical and thermomechanical properties of the composites. Three different types of bio-based resins were used. Plates reinforced with eight layers plain weave flax fibers of 150 g/m², manufactured using Resin Transfer Molding (RTM), compression molding or autoclave technique depends on type of the resin. One dimensional Fickian behavior shows a good fitting to the experimental data derived from weight measurements. The water uptake at the equilibrium state in the case of 60 °C temperature was slightly greater than that at 40 °C. The mechanical properties after hydrothermal aging show a significant reduction and do not return to their initial values even after the drying process. © 2019 Wiley Periodicals, Inc. J. Appl. Polym. Sci. 2020 , 137, 48787.     

Interlayer bonding between thermoplastic composites and metals by in-situ polymerization technique

Fiber-metal laminates (FMLs) offer the superior characteristics of polymer composites (i.e., light weight, high strength and stiffness) with the ductility and fracture strength of metals. The bond strength between the two dissimilar materials, composite and metal, dictates the properties and performance of the FMLs. The bonding becomes more critical when the polymer matrix is thermoplastic and hydrophobic in nature. This work employed a novel bonding technique between thermoplastic composites and a metal layer using six different combinations of organic coatings. The flexural, and interlaminar shear strength of the thermoplastic fiber metal laminates (TP-FMLs) were examined to investigate the bond strengths in the different cases along with fracture characteristics revealed from the tested samples using scanning electron microscopy. The viscoelastic performance of the fabricated TP-FMLs were also investigated using the dynamic mechanical thermal analysis method.     

Molecular Dynamics Simulations of Bromodomains Reveal Binding-Site Flexibility and Multiple Binding Modes of the Natural Ligand Acetyl-Lysine

Experimental protein structures provide spatial information at the atomic level. A further dimension, time, is supplemented by molecular dynamics. Since the pioneering work on the 58-residue inhibitor of bovine pancreatic trypsin in the group of Martin Karplus in the seventies, molecular dynamics simulations have shown that the intrinsic flexibility of proteins is essential for their function. Here, we review simulation studies of bromodomains. These protein modules are involved in the recognition of acetylated lysine side chains, a post-translational modification frequently observed in histone tails. The molecular dynamics simulations have unmasked: (i) the large plasticity of the loops lining the acetyl-lysine binding site (coupled to its self-occlusion), and (ii) multiple binding modes of acetyl-lysine. These simulation results suggest that recognition of histone tails by bromodomains is modulated by their intrinsic flexibility, and further corroborate the utility of molecular dynamics in understanding (macro)molecular recognition.     

Environmentally Friendly Determination of Quality Parameters of Biodiesel/Diesel Blends Using Fourier Transform Infrared Spectra

Multivariate calibration models based on data from mid‐infrared spectroscopy of biodiesel/diesel blends were obtained. The blends were prepared from diesel oil and esters of soybean oil, waste cooking oil, and hydrogenated vegetable oil in proportions ranging from 0 to 100 % biodiesel. The results showed that the multivariate regression models with interval partial least squares (iPLS), backward interval partial least squares (biPLS), and synergy interval partial least squares (siPLS) were able to determine the fractions of the infrared spectrum that contain the relevant information for estimating the values of physicochemical properties, flash point, specific gravity, and cetane number, which are used in quality control of the blends. In the best models, the values of determination coefficients were greater than 0.9500, proving their efficiency as an alternative to traditional analytical methods.