Critical Assessment of Scoring Schemes for Protein-Protein Docking Predictions

Protein-protein interactions (PPI) play a crucial role in many biological processes such as cell signalling, transcription, translation, replication, signal transduction, and drug targeting, etc. Structural information about protein-protein interaction is essential for understanding the molecular mechanisms of these processes. Structures of protein-protein complexes are still difficult to obtain by biophysical methods such as NMR and X-ray crystallography, and therefore protein-protein docking computation is considered an important approach for understanding protein-protein interactions. However, reliable prediction of the protein-protein complexes is still under way. In the past decades, several grid-based docking algorithms based on the Katchalski-Katzir scoring scheme were developed, e.g., FTDock, ZDOCK, HADDOCK, RosettaDock, HEX, etc. However, the success rate of protein-protein docking prediction is still far from ideal. In this work, we first propose a more practical measure for evaluating the success of protein-protein docking predictions,the rate of first success (RFS), which is similar to the concept of mean first passage time (MFPT). Accordingly, we have assessed the ZDOCK bound and unbound benchmarks 2.0 and 3.0. We also createda new benchmark set for protein-protein docking predictions, in which the complexes have experimentally determined binding affinity data. We performed free energy calculation based on the solution of non-linear Poisson-Boltzmann equation (nlPBE) to improve the binding mode prediction. We used the well-studied thebarnase-barstarsystem to validate the parameters for free energy calculations. Besides,thenlPBE-based free energy calculations were conducted for the badly predicted cases by ZDOCK and ZRANK. We found that direct molecular mechanics energetics cannot be used to discriminate the native binding pose from the decoys.Our results indicate that nlPBE-based calculations appeared to be one of the promising approaches for improving the success rate of binding pose predictions.

Adaptive Multi-Camera Shooting System Based on Dynamic Workflow in a Compact Studio

We developed a multi-camera control system that a (one) cameraman can operate several cameras at a compact studio. we analyzed a workflow of a cameraman of some program shootings with two cameras and clarified their heavy tasks. The system based on a dynamic workflow which adapts a program progressing and recommends of cameraman. we perform the automation of multicamera controls by modeling of studio environment and perform automatic camera adjustment for suitable angle of view with face detection. Our experiment at a real program shooting showed that one cameraman can carry out the task of shooting sufficiently.

Reconfigurable Circularly Polarized Compact Short Backfire Antenna

In this research paper, a slotted coaxial line fed cross dipole excitation structure for short backfire antenna is proposed and developed to achieve reconfigurable circular polarization. The cross dipole, which is fed by the slotted coaxial line, consists of two orthogonal dipoles. The dipoles are mounted on the outer conductor of the coaxial line. A unique technique is developed to generate reconfigurable circular polarization using cross dipole configuration. The sub-reflector is supported by the feed line, thus requiring no extra support. The antenna is developed on elliptical ground plane with dielectric rim making antenna compact. It is demonstrated that cross dipole excited short backfire antenna can achieve voltage standing wave ratio (VSWR) bandwidth of 14.28% for 2:1 VSWR, axial ratio of 0.2 dB with axial ratio (≤ 3dB) bandwidth of 2.14% and a gain of more than 12 dBi. The experimental results for the designed antenna structure are in close agreement with computer simulations.

Pomelo Peel: Agricultural Waste for Biosorption of Cadmium Ions from Aqueous Solutions

The ability of pomelo peel, a natural biosorbent, to remove Cd(II) ions from aqueous solution by biosorption was investigated. The experiments were carried out by batch method at 25 °C. The influence of solution pH, initial cadmium ion concentrations and contact times were evaluated. Cadmium ion removal increased significantly as the pH of the solution increased from pH 1 to pH 5. At pH 5, the cadmium ion removal reached a maximum value. The equilibrium process was described well by the Langmuir isotherm model, with a maximum biosorption capacity of 21.83 mg/g. The biosorption was relatively quick, (approx. 20 min). Biosorption kinetics followed a pseudo-second-order model. The result showed that pomelo peel was effective as a biosorbent for removing cadmium ions from aqueous solution. It is a low cost material that shows potential to be applied in wastewater technology for remediation of heavy metal contamination.

The Construction of Interactive Computer Multimedia Instruction on “Basic Japanese Vocabulary“

The study entitled “The Construction of Interactive Computer Multimedia Instruction on Basic Japanese Vocabulary" was aimed: 1) To construct the interactive computer multimedia instruction on Basic Japanese Vocabulary, 2) To find out multimedia-s quality, 3) To examine the student-s satisfaction and 4) To study the learning achievement in Basic Japanese vocabulary. The sampling group used in this study was composed of 40 1st year student in Educational Communications and Technology Department, Faculty of Industrial Education and Technology, King Mongkut-s University of Technology Thonburi, in the academic year 2553 B.E. (2010). According to research results, we found that 1). The quality assessment by 3 mass media experts was at 4.72 on average or at high level. 2) In terms of contents, the evaluation by 3 experts was at 4.81 on average or at high level. 3) In terms of achievement, there was a statistical significance between before and after the treatment at the .05 level. 4) The satisfaction of students towards the interactive computer multimedia Instruction on “Basic Japanese Vocabulary" was 4.35 on average, or at high level.

Mathematical Modeling of Gas Turbine Blade Cooling

In contrast to existing methods which do not take into account multiconnectivity in a broad sense of this term, we develop mathematical models and highly effective combination (BIEM and FDM) numerical methods of calculation of stationary and quasistationary temperature field of a profile part of a blade with convective cooling (from the point of view of realization on PC). The theoretical substantiation of these methods is proved by appropriate theorems. For it, converging quadrature processes have been developed and the estimations of errors in the terms of A.Ziqmound continuity modules have been received. For visualization of profiles are used: the method of the least squares with automatic conjecture, device spline, smooth replenishment and neural nets. Boundary conditions of heat exchange are determined from the solution of the corresponding integral equations and empirical relationships. The reliability of designed methods is proved by calculation and experimental investigations heat and hydraulic characteristics of the gas turbine first stage nozzle blade.

Verifying X.509 Certificates on Smart Cards

This paper presents a smart-card applet that is able to verify X.509 certificates and to use the public key contained in the certificate for verifying digital signatures that have been created using the corresponding private key, e.g. for the purpose of authenticating the certificate owner against the card. The approach has been implemented as an operating prototype on Java cards.

Deicing and Corrosive Performances of Calcium Acetate Deicer Made from Bamboo-Vinegar

Calcium magnesium acetate (CMA) is environmentally benign deicing chemicals that can replace sodium chloride that is widely used on roads and highways at present for snow and ice control to provide safe driving conditions during winter. The price of CMA from petroleum-derived acetic acid is quite expensive. The bamboo vinegar is the by-product from bamboo charcoal production. The bamboo vinegar was used to prepare calcium acetate as raw materials, and its deicing and corrosive performances were studied in this paper. The results show that the freezing temperature of calcium acetate is lower than that of sodium chloride when they have same molar concentration, the deicing performance of calcium acetate is better than that of sodium chloride when they have same moles, while the deicing performance of sodium chloride is better than that of calcium acetate. The corrosion of sodium chloride on iron-nail and steel-nail is larger than that of calcium acetate whether they have same mass concentration or same molar concentration, and the corrosion of sodium chloride and calcium acetate on iron-nail is larger than that on steel-nail, and calcium acetate almost hasn't corrosion on steel-nail.

Nanocrystalline Mg-3%Al Alloy: its Synthesis and Investigation of its Tensile Behavior

The tensile properties of Mg-3%Al nanocrystalline alloys were investigated at different test environment. Bulk nanocrystalline samples of these alloy was successfully prepared by mechanical alloying (MA) followed by cold compaction, sintering, and hot extrusion process. The crystal size of the consolidated milled sample was calculated by X-Ray line profile analysis. The deformation mechanism and microstructural characteristic at different test condition was discussed extensively. At room temperature, relatively lower value of activation volume (AV) and higher value of strain rate sensitivity (SRS) suggests that new rate controlling mechanism accommodating plastic flow in the present nanocrystalline sample. The deformation behavior and the microstructural character of the present samples were discussed in details.

The Role of Work Ethic in the Development of Singapore, South Korea, Malaysia, Japan and European Countries

Work ethic and labour productivity issues are extremely important for any society. It has been long proven by the global practice and various scholars that the country promoting the labour has always been way forward from the other countries. This paper studies the thoughts suggested by M.Weber, Confucius, Lee Kuan Yew, Mahathir Mohammad and other prominent thinkers concerning the issues of work ethics and labour productivity. The article analyzes why developed nations are way more advanced in their development compared to other nations.

Investigation of Tool Temperature and Surface Quality in Hot Machining of Hard-to-Cut Materials

Production of hard-to-cut materials with uncoated carbide cutting tools in turning, not only cause tool life reduction but also, impairs the product surface roughness. In this paper, influence of hot machining method were studied and presented in two cases. Case1-Workpiece surface roughness quality with constant cutting parameter and 300 ºC initial workpiece surface temperature. Case 2- Tool temperature variation when cutting with two speeds 78.5 (m/min) and 51 (m/min). The workpiece material and tool used in this study were AISI 1060 steel (45HRC) and uncoated carbide TNNM 120408-SP10(SANDVIK Coromant) respectively. A gas flam heating source was used to preheating of the workpiece surface up to 300 ºC, causing reduction of yield stress about 15%. Results obtained experimentally, show that the method used can considerably improved surface quality of the workpiece.

Comparative Micro-Morphology, Anatomy and Architecture of Leaf of Physalis

Two species of Physalis, P.angulataL. and P. peruviana L. were used as models for comparative study to understand the values of micro-morphological, -anatomical and architectural characteristics of leaf for taxonomic purposes and possibly breeding and commercial applications. Both speciespossess amphistomaticleaves with 1-layer epidermis, 3-4-layer spongy mesophyll andbicollateral bundle midrib. Palisade parenchyma cells of P. angulatawere almost twice longer (65-75 μm) than the other one. Type of stomata was similar as anomocyticbut stomatal index(SI) at adaxial surface and abaxial surface of P. angulata were less than of P. peruvianaas 3.57, 4.00 and6.25, 6.66 respectively. Some leaf architectural characteristics such as leaf shape, order of venationalsoprovided information of taxonomic significance

Numerical Analysis of Rapid Gas Decompression in Pure Nitrogen using 1D and 3D Transient Mathematical Models of Gas Flow in Pipes

The paper presents a numerical investigation on the rapid gas decompression in pure nitrogen which is made by using the one-dimensional (1D) and three-dimensional (3D) mathematical models of transient compressible non-isothermal fluid flow in pipes. A 1D transient mathematical model of compressible thermal multicomponent fluid mixture flow in pipes is presented. The set of the mass, momentum and enthalpy conservation equations for gas phase is solved in the model. Thermo-physical properties of multicomponent gas mixture are calculated by solving the Equation of State (EOS) model. The Soave-Redlich-Kwong (SRK-EOS) model is chosen. This model is successfully validated on the experimental data [1] and shows a good agreement with measurements. A 3D transient mathematical model of compressible thermal single-component gas flow in pipes, which is built by using the CFD Fluent code (ANSYS), is presented in the paper. The set of unsteady Reynolds-averaged conservation equations for gas phase is solved. Thermo-physical properties of single-component gas are calculated by solving the Real Gas Equation of State (EOS) model. The simplest case of gas decompression in pure nitrogen is simulated using both 1D and 3D models. The ability of both models to simulate the process of rapid decompression with a high order of agreement with each other is tested. Both, 1D and 3D numerical results show a good agreement between each other. The numerical investigation shows that 3D CFD model is very helpful in order to validate 1D simulation results if the experimental data is absent or limited.

New Proxy Signatures Preserving Privacy and as Secure as ElGamal Signatures

Digital signature is a useful primitive to attain the integrity and authenticity in various wire or wireless communications. Proxy signature is one type of the digital signatures. It helps the proxy signer to sign messages on behalf of the original signer. It is very useful when the original signer (e.g. the president of a company) is not available to sign a specific document. If the original signer can not forge valid proxy signatures through impersonating the proxy signer, it will be robust in a virtual environment; thus the original signer can not shift any illegal action initiated by herself to the proxy signer. In this paper, we propose a new proxy signature scheme. The new scheme can prevent the original signer from impersonating the proxy signer to sign messages. The proposed scheme is based on the regular ElGamal signature. In addition, the fair privacy of the proxy signer is maintained. That means, the privacy of the proxy signer is preserved; and the privacy can be revealed when it is necessary.

Study of Aluminum, Copper and Molybdenum Pollution in Groundwater Sources Surrounding (Miduk) Shahr-E- Babak Copper Complex Tailings Dam

Interpolated contour maps drawn for aluminum, copper and molybdenum in downstream monitoring boreholes of water dam in Miduk Copper Complex and the values of pH, redox potential (Eh) and distance from water dam indicate different trends of variation and behavior of these three elements in downward groundwater resources. As these maps exhibit, aluminum is dominant in the most alkaline (pH = 9-11) borehole (MB5) to water dam. The highest concentration of molybdenum is found in the nearest borehole (MB6) to water dam. Main concentration of copper is observed in the most oxidized borehole (MB3 with Eh=293.2mV). The spatial difference among sampling stations can be attributed to the existence of faults and diaclases in the geologic structure of Miduk region which causes the groundwater sampling sites to be impressed by different contamination sources (toe seepage and upper seepage water originated from different zones of tailings dump).

A Generator from Cascade Markov Model for Packet Loss and Subsequent Bit Error Description

In this paper we present a novel error model for packet loss and subsequent error description. The proposed model simulates the error performance of wireless communication link. The model is designed as two independent Markov chains, where the first one is used for packet generation and the second one generates correctly and incorrectly transmitted bits for received packets from the first chain. The statistical analyses of real communication on the wireless link are used for determination of model-s parameters. Using the obtained parameters and the implementation of the generator, we collected generated traffic. The obtained results generated by proposed model are compared with the real data collection.

Waste Management, Strategies and Situation in South Africa: An Overview

This paper highlights some interesting facts on South African-s waste situation and management strategies, in particular the Integrated Waste Management. South Africa supports a waste hierarchy by promoting cleaner production, waste minimisation, reuse, recycling and waste treatment with disposal and remediation as the last preferred options in waste management. The drivers for waste management techniques are identified as increased demand for waste service provision; increased demand for waste minimisation; recycling and recovery; land use, physical and environmental limitations; and socio-economic and demographic factors. The South African government recognizes the importance of scientific research as outlined on the white paper on Integrated Pollution and Waste Management (IP and WM) (DEAT, 2000).

Blood Lymphocyte and Neutrophil Response of Cultured Rainbow Trout, Oncorhynchus mykiss, Administered Varying Dosages of an Oral Immunomodulator – ‘Fin-Immune™’

In a 10-week (May – August, 2008) Phase I trial, 840, 1+ rainbow trout, Oncorhynchus mykiss, received a commercial oral immunomodulator, Fin Immune™, at four different dosages (0, 10, 20 and 30 mg g-1) to evaluate immune response and growth. The overall objective of was to determine an optimal dosage of this product for rainbow trout that provides enhanced immunity with maximal growth and health. Biweekly blood samples were taken from 10 randomly selected fish in each tank (30 samples per treatment) to evaluate the duration of enhanced immunity conferred by Fin-Immune™. The immunological assessment included serum white blood cell (lymphocyte, neutrophil) densities and blood hematocrit (packed cell volume %). Of these three variables, only lymphocyte density increased significantly among trout fed Fin- Immune™ at 20 and 30 mg g-1 which peaked at week 6. At week 7, all trout were switched to regular feed (lacking Fin-Immune™) and by week 10, lymphocyte levels decreased among all levels but were still greater than at week 0. There was growth impairment at the highest dose of Fin-Immune™ tested (30 mg g-1) which can be associated with a physiological compensatory mechanism due to a dose-specific threshold level. Thus, our main objective of this Phase I study was achieved, the 20 mg g-1 dose of Fin-Immune™ should be the most efficacious (of those we tested) to use for a Phase II disease challenge trial.

An Empirical Analysis of the Influence of Application Experience on Working Methods of Process Modelers

In view of growing competition in the service sector, services are as much in need of modeling, analysis and improvement as business or working processes. Graphical process models are important means to capture process-related know-how for an effective management of the service process. In this contribution, a human performance analysis of process model development paying special attention to model development time and the working method was conducted. It was found that modelers with higher application experience need significantly less time for mental activities than modelers with lower application experience, spend more time on labeling graphical elements, and achieved higher process model quality in terms of activity label quality.

Forensic Implications of Blowfly Chrysomya rufifacies (Calliphoridae: Diptera) Development Rates Affected by Ketum Extract

This study was conducted to examine the effects of ketum extract on development of Chrysomya rufifacies and to analyze the presence of mitragynine in the larvae samples. 110 newly emerged first instar larvae of C. rufifacies were introduced on ketum extract-mixed cow liver at doses of 0, 20, 40 and 60g. Blowfly development rate was determined with 12 hour intervals and mitragynine in larvae was extracted and quantitated. C. rufifacies in control group took about 192 hours to complete their development from first instar larvae to adult blowfly; meanwhile blowfly form from the highest dose of ketum was 264 hours. Mitragynine was detected in all groups of treatment, except for control. In conclusion, the presence of mitragynine in C. rufifacies is affected in delaying development rates of the blowfly for up to 62 hours or 3 days. Chemical analysis of mitragynine from larvae samples showed that this alkaloid present in all specimens analyzed.