A new feature encoding scheme for HIV-1 protease cleavage site prediction

HIV-1 protease has been the subject of intense research for deciphering HIV-1 virus replication process for decades. Knowledge of the substrate specificity of HIV-1 protease will enlighten the way of development of HIV-1 protease inhibitors. In the prediction of HIV-1 protease cleavage site techniques, various feature encoding techniques and machine learning algorithms have been used frequently. In this paper, a new feature amino acid encoding scheme is proposed to predict HIV-1 protease cleavage sites. In the proposed method, we combined orthonormal encoding and Taylor’s venn-diagram. We used linear support vector machines as the classifier in the tests. We also analyzed our technique by comparing some feature encoding techniques. The tests are carried out on PR-1625 and PR-3261 datasets. Experimental results show that our amino acid encoding technique leads to better classification performance than other encoding techniques on a standalone classifier.     

Use of Salt Baths in the Temperature Range from 175?��C to 540?��C with Uncertainties of Less than 30?m��C

Calibration of thermometers in the temperature range from ?80 °C to 550 °C requires liquid baths; alcohol, water, silicon oil, salt baths and dry block furnaces. In this study, the use of salt baths outside of their usual range of 250 °C to 540 °C for calibrating thermometers in the range between 175 °C and 250 °C is proposed. The calibration range from 150 °C to 250 °C is usually covered by an oil bath, but utilizing a salt bath saves calibration time and resources, improves stability and homogeneity, allows longer term usage of the liquid, and reduces hazardous chemical vapors evaporated at temperatures above 175 °C. This proposal is based on a study of the uncertainty contributions at varying salt bath temperatures in the range from 175 °C to 540 °C which was carried out in this study. Results achieved and analyzed in this study indicate that the implementation of salt baths in this lower temperature range provides opportunities to calibrate reference and/or working thermometers with an uncertainty below 30 m°C, almost the same as the oil-bath uncertainty in the range of 175 °C to 250 °C. The main components of uncertainty contributed by a salt bath over this temperature range are discussed in this study.     

Diffusion bonding of electroless Ni plated WC composite to Cu and AISI 316 stainless steel

In this study, a composite containing WC (Tungsten Carbide) and Ni was produced by two different processing routes. Electroless Ni coated WC powders were consolidated and sintered at 1200 °C. Diffusion bonding couples of WC(Ni)-electrolytic Cu, WC(Ni)-AISI 316 stainless steel and WC(Ni)-WC(Ni) were manufactured by using a preloaded compression system under Ar atmosphere. Diffusion bonding was carried out at varying bonding temperatures; 750 °C for (WC)Ni-Cu diffusion couple and 1200 °C for (WC)Ni-(WC)Ni and (WC)Ni-AISI 316 stainless steel diffusion couples. Standard metallographic techniques, Scanning Electron Microscopy and a shear test were employed to characterize the microstructure of bondline and mechanical properties of each diffusion couple, respectively.     

Synthesis and electrochemical,in situ spectroelectrochemical,electrical and gas sensing properties of ball-type homo- and hetero-dinuclear phthalocyanines with four [1a,8b-dihydronaphtho[b]naphthofuro[3,2-d]furan-7,10-diyl] bridges

The new mono-nuclear Fe^II 2 and ball-type homo-dinuclear Fe^II–Fe^II 3 phthalocyanines have been synthesized from the corresponding 4,4′-(1a,8b-dihydronaphtho[b]naphthofuro[3,2-d]-furan-7,10-diyl)bis(oxy)diphthalonitrile 1 while ball-type hetero-dinuclear Fe^II–Co^II phthalocyanine 4 was synthesized from 2. The compounds have been characterized by elemental analysis, UV–vis, IR and MALDI-TOF-mass spectroscopies. The redox behaviours of the complexes were identified by controlled-potential coulometry, cyclic voltammetry and differential pulse voltammetry measurements on Pt in dimethylsulfoxide containing tetrabutylammonium perchlorate. The assignments of the redox processes and the understanding of the interactions between the metal phthalocyanine units in 3 and 4 were achieved by the combined evaluation of the voltammetric and in situ spectroelectrochemical outcomes. Complex 3 showed ring-based mixed-valence behaviour as a result of the considerable interaction between the phthalocyanine rings. On the other hand, the interactions between the two metal phthalocyanine units of 4 were found to be much weaker than those in 3. The potential application of molecular organic semiconductors needs the control adjustment of conductivity. Ac and dc conductivity measurements were performed with the applied external electric filed. At high frequency, the conduction follows the universal power law and conduction mechanism can be explained by classical hopping barriers mechanism for the system.     

Neural extension of experimental data to investigate using phosphogypsume in light brick production

In this study, usability of wastes produced in phosphoric acid plants in structural brick manufacture has been investigated. There are several parameters involved in using these wastes in brick production namely the rate of added waste, firing speed and firing temperature. The performance of these parameters can be measured by several criteria such as natural drying shortening, water absorption and weight loss. Therefore, so many experiments are needed to investigate the effects of these parameters on the bricks produced with these wastes. The result of a series of experiments were utilized to achieve this end. The results have shown that the industrial wastes considered improve the performance of the bricks in terms of the criteria mentioned above. However, the results have also shown that further investigations are needed to explore the effects of interim values on the performance of the bricks. To achieve that end, a neural experimental study is adopted. For this purpose, the results of the experiments conducted were used to construct an artificial neural network. The trained and tested network was then used to check the effects of 280 different combinations for each type of material mixtures mentioned. The outcome of these artificial tests have provided the optimal values for the waste addition rate, firing speed and firing temperature based on the four criteria mentioned previously.     

k‐strong privacy for radio frequency identification authentication protocols based on physically unclonable functions

This paper examines Vaudenay's privacy model, which is one of the first and most complete privacy models that featured the notion of different privacy classes. We enhance this model by introducing two new generic adversary classes, k‐strong and k‐forward adversaries where the adversary is allowed to corrupt a tag at most k times. Moreover, we introduce an extended privacy definition that also covers all privacy classes of Vaudenay's model. In order to achieve highest privacy level, we study low cost primitives such as physically unclonable functions (PUFs). The common assumption of PUFs is that their physical structure is destroyed once tampered. This is an ideal assumption because the tamper resistance depends on the ability of the attacker and the quality of the PUF circuits. In this paper, we have weakened this assumption by introducing a new definition k‐resistant PUFs. k‐PUFs are tamper resistant against at most k attacks; that is, their physical structure remains still functional and correct until at most k^th physical attack. Furthermore, we prove that strong privacy can be achieved without public‐key cryptography using k PUF‐based authentication. We finally prove that our extended proposal achieves both reader authentication and k‐strong privacy. Copyright © 2014 John Wiley & Sons, Ltd.     

Evaluation of wind energy investment interest and electricity generation cost analysis for Turkey

Turkey has remarkable wind energy potential, but its utilisation rate is very low. However, in 2007, energy investors applied to the Energy Market Regulatory Authority (EMRA) with 751 wind projects to obtain a 78180.2 MW wind power plant license. This paper first presents an overview of wind energy development in the world and then reviews related situations in Turkey. Second, to motivate the interest in wind energy investment, new wind power plant license applications in Turkey are analysed. Finally, wind electricity generation cost analyses were performed at 14 locations in Turkey. Capacity factors of investigated locations were calculated between 19.7% and 56.8%, and the production cost of electrical energy was between 1.73 and 4.99 $cent/kW h for two different wind shear coefficients.     

An experimental investigation on the wake interferences among wind turbines sited in aligned and staggered wind farms

An experimental investigation was conducted for a better understanding of the wake interferences among wind turbines sited in wind farms with different turbine layout designs. Two different types of inflows were generated in an atmospheric boundary layer wind tunnel to simulate the different incoming surface winds over typical onshore and offshore wind farms. In addition to quantifying the power outputs and dynamic wind loads acting on the model turbines, the characteristics of the wake flows inside the wind farms were also examined quantitatively. After adding turbines staggered between the first 2 rows of an aligned wind farm to increase the turbine number density in the wind farm, the added staggered turbines did not show a significant effect on the aeromechanical performance of the downstream turbines for the offshore case. However, for the onshore case, while the upstream staggered turbines have a beneficial effect on the power outputs of the downstream turbines, the fatigue loads acting on the downstream turbines were also found to increase considerably due to the wake effects induced by the upstream turbines. With the same turbine number density and same inflow characteristics, the wind turbines were found to be able to generate much more power when they are arranged in a staggered layout than those in an aligned layout. In addition, the characteristics of the dynamic wind loads acting on the wind turbines sited in the aligned layout, including the fluctuation amplitudes and power spectrum, were found to be significantly different from those with staggered layout.     

Preparation of N‐doped graphene powders by cyclic voltammetry and a potential application of them: Anode materials of Li‐ion batteries

Nowadays, doped graphenes are attracting much interest in the field of Li‐ion batteries since it shows higher specific capacity than widely used graphite. However, synthesis methods of doped graphenes have secondary processes that requires much energy. In this study, in situ synthesis of N‐doped graphene powders by using of cyclic voltammetric method from starting a graphite rod in nitric acid solution has been discussed for the first time in the literature. The N‐including functional groups such as nitro groups, pyrrolic N, and pyridinic N have been selectively prepared as changing scanned potential ranges in cyclic voltammetry. The electrochemical performance as anode material in Li‐ion batteries has also been covered within this study. N‐doped graphene powders have been characterized by electrochemical, spectroscopic, and microscopic methods. According to the X‐ray photoelectron spectroscopy and Raman results, N‐doped graphene powders have approximately 16 to 18 graphene rings in their main structure. The electrochemical analysis of graphene powders synthesized at different potential ranges showed that the highest capacity was obtained 438 mAh/g after 10 cycles by using current density of 50 mA/g at N‐GP4. Furthermore, the sample having higher defect size shows better specific capacity. However, the more stable structure due to oxygen content and less defect size improves the rate capabilities, and thus, the results obtained at high current density indicated that the remaining capacity of N‐GP1 was higher than the others.