Finding Approximate Tandem Repeats with the Burrows-Wheeler Transform

Approximate tandem repeats in a genomic sequence are two or more contiguous, similar copies of a pattern of nucleotides. They are used in DNA mapping, studying molecular evolution mechanisms, forensic analysis and research in diagnosis of inherited diseases. All their functions are still investigated and not well defined, but increasing biological databases together with tools for identification of these repeats may lead to discovery of their specific role or correlation with particular features. This paper presents a new approach for finding approximate tandem repeats in a given sequence, where the similarity between consecutive repeats is measured using the Hamming distance. It is an enhancement of a method for finding exact tandem repeats in DNA sequences based on the Burrows- Wheeler transform.

Study of Efficiency and Capability LZW++ Technique in Data Compression

The purpose of this paper is to show efficiency and capability LZWµ in data compression. The LZWµ technique is enhancement from existing LZW technique. The modification the existing LZW is needed to produce LZWµ technique. LZW read one by one character at one time. Differ with LZWµ technique, where the LZWµ read three characters at one time. This paper focuses on data compression and tested efficiency and capability LZWµ by different data format such as doc type, pdf type and text type. Several experiments have been done by different types of data format. The results shows LZWµ technique is better compared to existing LZW technique in term of file size.

Performance Enhancement of Membrane Distillation Process in Fruit Juice Concentration by Membrane Surface Modification

In this work Membrane Distillation is applied to concentrate orange Juice. Clarified orange juice (11o Brix) obtained from fresh fruits and a sugar solution was subjected to membrane distillation. The experiments were performed on a flat sheet module using orange juice and sucrose solution as feeds. The concentration of a sucrose solution, used as a model fruit juice and also orange juice, was carried out in a direct contact membrane distillation using hydrophobic PTFE membrane of pore size 0.2 μm and porosity 70%. Surface modification of PTFE membrane has been carried out by treating membrane with alcohol and water solution to make it hydrophilic and then hydrophobicity was regained by drying. The influences of the feed temperature, feed concentration, flow rate, operating time on the permeate flux were studied for treated and non treated membrane. In this work treated and non treated membrane were compared in terms of water flux, Within the tested range, MD with surface modified membrane the water flux has been significantly improved by treating the membrane surface.

Effect of Particle Size in Aviation Turbine Fuel-Al2O3 Nanofluids for Heat Transfer Applications

The effect of Alumina nanoparticle size on thermophysical properties, heat transfer performance and pressure loss characteristics of Aviation Turbine Fuel (ATF)-Al2O3 nanofluids is studied experimentally for the proposed application of regenerative cooling of semi-cryogenic rocket engine thrust chambers. Al2O3 particles with mean diameters of 50 nm or 150 nm are dispersed in ATF. At 500C and 0.3% particle volume concentration, the bigger particles show increases of 17% in thermal conductivity and 55% in viscosity, whereas the smaller particles show corresponding increases of 21% and 22% for thermal conductivity and viscosity respectively. Contrary to these results, experiments to study the heat transfer performance and pressure loss characteristics show that at the same pumping power, the maximum enhancement in heat transfer coefficient at 500C and 0.3% concentration is approximately 47% using bigger particles, whereas it is only 36% using smaller particles.

Speedup of Data Vortex Network Architecture

In this paper, 3X3 routing nodes are proposed to provide speedup and parallel processing capability in Data Vortex network architectures. The new design not only significantly improves network throughput and latency, but also eliminates the need for distributive traffic control mechanism originally embedded among nodes and the need for nodal buffering. The cost effectiveness is studied by a comparison study with the previously proposed 2- input buffered networks, and considerable performance enhancement can be achieved with similar or lower cost of hardware. Unlike previous implementation, the network leaves small probability of contention, therefore, the packet drop rate must be kept low for such implementation to be feasible and attractive, and it can be achieved with proper choice of operation conditions.

A Preliminary Study of Drug Perfusion Enhancement by Microstreaming Induced by an Oscillating Microbubble

Microbubbbles incorporating ultrasound have been used to increase the efficacy of targeted drug delivery, because microstreaming induced by cavitating bubbles affects the drug perfusion into the target cells and tissues. In order to clarify the physical effects of microstreaming on drug perfusion into tissues, a preliminary experimental study of perfusion enhancement by a stably oscillating microbubble was performed. Microstreaming was induced by an oscillating bubble at 15 kHz, and perfusion of dye into an agar phantom was optically measured by histology on agar phantom. Surface color intensity and the penetration length of dye in the agar phantom were increased more than 70% and 30%, respectively, due to the microstreaming induced by an oscillating bubble. The mass of dye perfused into a tissue phantom for 30 s was increased about 80% in the phantom with an oscillating bubble. This preliminary experiment shows the physical effects of steady streaming by an oscillating bubble can enhance the drug perfusion into the tissues while minimizing the biological effects.

Optimizing TCP Vegas- Performance with Packet Spacing and Effect of Variable FTP Packet Size over Wireless IPv6 Network

This paper describes the performance of TCP Vegas over the wireless IPv6 network. The performance of TCP Vegas is evaluated using network simulator (ns-2). The simulation experiment investigates how packet spacing affects the network delay, network throughput and network efficiency of TCP Vegas. Moreover, we investigate how the variable FTP packet sizes affect the network performance. The result of the simulation experiment shows that as the packet spacing is implements, the network delay is reduces, network throughput and network efficiency is optimizes. As the FTP packet sizes increase, the ratio of delay per throughput decreases. From the result of experiment, we propose the appropriate packet size in transmitting file transfer protocol application using TCP Vegas with packet spacing enhancement over wireless IPv6 environment in ns-2. Additionally, we suggest the appropriate ratio in determining the appropriate RTT and buffer size in a network.

Polyphenolic Profile and Antioxidant Activities of Nigella Sativa Seed Extracts In Vitro and In Vivo

Nigella sativa L. is an aromatic plant belonging to the family Ranunculaceae. It has been used traditionally, especially in the middle East and India, for the treatment of asthma, cough, bronchitis, headache, rheumatism, fever, influenza and eczema. Several biological activities have been reported in Nigella sativa seeds, including antioxidant. In this context we tried to estimate the antioxidant activity of various extracts prepared from Nigella sativa seeds, methanolic extract (ME), chloroformic extract (CE), hexanic extract (HE : fixed oil), ethyl acetate extract (EAE) water extract (WE). The Folin-Ciocalteu assay showed that CE and EAE contained high level of phenolic compounds 81.31 and 72.43μg GAE/mg of extract respectively. Similarly, the CE and EAE exhibited the highest DPPH radical scavenging activity, with IC50 values of 106.56μg/ml and 121.62μg/ml respectively. In addition, CE and HE showed the most scavenging activity against superoxide radical generated in the PMS-NADH-NBT system with respective IC50 values of 361.86 μg/ml and 371.80 μg/ml, which is comparable to the activity of the standard antioxidant BHT (344.59 μg/ml). Ferrous ion chelating capacity assay showed that WE, EAE and ME are the most active with 40.57, 39.70 and 22.02 mg EDTA-E/g of extract. The inhibition of linoleic acid/ß-carotene coupled oxidation was estimated by ßcarotene bleaching assay, this showed a highest relative antioxidant activity with CE and EAE (69.82% of inhibition). The antioxidant activities of the methanolic extract and the fixed oil are confirmed by an in vivo assay in mice, the daily oral administration of methanolic extract (500 and 800 mg/kg/day) and fixed oil (2 and 4 ml/kg/day) during 21 days, resulted in a significant enhancement of the blood total antioxidant capacity (measured by KRL test) and the plasmatic antioxidant capacity towards DPPH radical.

Efficiency Enhancement of PWM Controlled Water Electrolysis Cells

By analyzing the sources of energy and power loss in PWM (Pulse Width Modulation) controlled drivers of water electrolysis cells, it is possible to reduce the power dissipation and enhance the efficiency of such hydrogen production units. A PWM controlled power driver is based on a semiconductor switching element where its power dissipation might be a remarkable fraction of the total power demand of an electrolysis system. Power dissipation in a semiconductor switching element is related to many different parameters which could be fitted into two main categories: switching losses and conduction losses. Conduction losses are directly related to the built, structure and capabilities of a switching device itself and indeed the conditions in which the element is handling the switching application such as voltage, current, temperature and of course the fabrication technology. On the other hand, switching losses have some other influencing variables other than the mentioned such as control system, switching method and power electronics circuitry of the PWM power driver. By analyzings the characteristics of recently developed power switching transistors from different families of Bipolar Junction Transistors (BJT), Metal Oxide Semiconductor Field Effect Transistors (MOSFET) and Insulated Gate Bipolar Transistors (IGBT), some recommendations are made in this paper which are able to lead to achieve higher hydrogen production efficiency by utilizing PWM controlled water electrolysis cells.

Scatterer Density in Nonlinear Diffusion for Speckle Reduction in Ultrasound Imaging: The Isotropic Case

This paper proposes a method for speckle reduction in medical ultrasound imaging while preserving the edges with the added advantages of adaptive noise filtering and speed. A nonlinear image diffusion method that incorporates local image parameter, namely, scatterer density in addition to gradient, to weight the nonlinear diffusion process, is proposed. The method was tested for the isotropic case with a contrast detail phantom and varieties of clinical ultrasound images, and then compared to linear and some other diffusion enhancement methods. Different diffusion parameters were tested and tuned to best reduce speckle noise and preserve edges. The method showed superior performance measured both quantitatively and qualitatively when incorporating scatterer density into the diffusivity function. The proposed filter can be used as a preprocessing step for ultrasound image enhancement before applying automatic segmentation, automatic volumetric calculations, or 3D ultrasound volume rendering.

A Novel EMG Feedback Control Method in Functional Electrical Stimulation Cycling System for Stroke Patients

With getting older in the whole population, the prevalence of stroke and its residual disability is getting higher and higher recently in Taiwan. The functional electrical stimulation cycling system (FESCS) is useful for hemiplegic patients. Because that the muscle of stroke patients is under hybrid activation. The raw electromyography (EMG) represents the residual muscle force of stroke subject whereas the peak-to-peak of stimulus EMG indicates the force enhancement benefiting from ES. It seems that EMG signals could be used for a parameter of feedback control mechanism. So, we design the feedback control protocol of FESCS, it includes physiological signal recorder, FPGA biomedical module, DAC and electrical stimulation circuit. Using the intensity of real-time EMG signal obtained from patients, as a feedback control method for the output voltage of FES-cycling system.

Detecting Subsurface Circular Objects from Low Contrast Noisy Images: Applications in Microscope Image Enhancement

Particle detection in very noisy and low contrast images is an active field of research in image processing. In this article, a method is proposed for the efficient detection and sizing of subsurface spherical particles, which is used for the processing of softly fused Au nanoparticles. Transmission Electron Microscopy is used for imaging the nanoparticles, and the proposed algorithm has been tested with the two-dimensional projected TEM images obtained. Results are compared with the data obtained by transmission optical spectroscopy, as well as with conventional circular object detection algorithms.

Towards CO2 Adsorption Enhancement via Polyethyleneimine Impregnation

To reduce the carbon dioxide emission into the atmosphere, adsorption is believed to be one of the most attractive methods for post-combustion treatment of flue gas. In this work, activated carbon (AC) was modified by polyethylenimine (PEI) via impregnation in order to enhance CO2 adsorption capacity. The adsorbents were produced at 0.04, 0.16, 0.22, 0.25, and 0.28 wt% PEI/AC. The adsorption was carried out at a temperature range from 30 °C to 75 °C and five different gas pressures up to 1 atm. TG-DTA, FT-IR, UV-visible spectrometer, and BET were used to characterize the adsorbents. Effects of PEI loading on the AC for the CO2 adsorption were investigated. Effectiveness of the adsorbents on the CO2 adsorption including CO2 adsorption capacity and adsorption temperature was also investigated. Adsorption capacities of CO2 were enhanced with the increase in the amount of PEI from 0.04 to 0.22 wt% PEI before the capacities decreased onwards from0.25 wt% PEI at 30 °C. The 0.22 wt% PEI/AC showed higher adsorption capacity than the AC for adsorption at 50 °C to 75 °C.

Network State Classification based on the Statistical properties of RTT for an Adaptive Multi-State Proactive Transport Protocol for Satellite based Networks

This paper attempts to establish the fact that Multi State Network Classification is essential for performance enhancement of Transport protocols over Satellite based Networks. A model to classify Multi State network condition taking into consideration both congestion and channel error is evolved. In order to arrive at such a model an analysis of the impact of congestion and channel error on RTT values has been carried out using ns2. The analysis results are also reported in the paper. The inference drawn from this analysis is used to develop a novel statistical RTT based model for multi state network classification. An Adaptive Multi State Proactive Transport Protocol consisting of Proactive Slow Start, State based Error Recovery, Timeout Action and Proactive Reduction is proposed which uses the multi state network state classification model. This paper also confirms through detail simulation and analysis that a prior knowledge about the overall characteristics of the network helps in enhancing the performance of the protocol over satellite channel which is significantly affected due to channel noise and congestion. The necessary augmentation of ns2 simulator is done for simulating the multi state network classification logic. This simulation has been used in detail evaluation of the protocol under varied levels of congestion and channel noise. The performance enhancement of this protocol with reference to established protocols namely TCP SACK and Vegas has been discussed. The results as discussed in this paper clearly reveal that the proposed protocol always outperforms its peers and show a significant improvement in very high error conditions as envisaged in the design of the protocol.

An Investigation of the Effect of the Different Mix Constituents on Concrete Electric Resistivity

Steel corrosion in concrete is considered as a main engineering problems for many countries and lots of expenses has been paid for their repair and maintenance annually. This problem may occur in all engineering structures whether in coastal and offshore or other areas. Hence, concrete structures should be able to withstand corrosion factors existing in water or soil. Reinforcing steel corrosion enhancement can be measured by use of concrete electrical resistance; and maintaining high electric resistivity in concrete is necessary for steel corrosion prevention. Lots of studies devoted to different aspects of the subjects worldwide. In this paper, an evaluation of the effects of W/C ratio, cementitious materials, and percent increase in silica fume were investigated on electric resistivity of high strength concrete. To do that, sixteen mix design with one aggregate grading was planned. Five of them had varying amount of W/C ratio and other eleven mixes was prepared with constant W/C ratio but different amount of cementitious materials. Silica fume and super plasticizer were used with different proportions in all specimens. Specimens were tested after moist curing for 28 days. A total of 80 cube specimens (50 mm) were tested for concrete electrical resistance. Results show that concrete electric resistivity can be increased with increasing amount of cementitious materials and silica fume.

Speech Enhancement by Marginal Statistical Characterization in the Log Gabor Wavelet Domain

This work presents a fusion of Log Gabor Wavelet (LGW) and Maximum a Posteriori (MAP) estimator as a speech enhancement tool for acoustical background noise reduction. The probability density function (pdf) of the speech spectral amplitude is approximated by a Generalized Laplacian Distribution (GLD). Compared to earlier estimators the proposed method estimates the underlying statistical model more accurately by appropriately choosing the model parameters of GLD. Experimental results show that the proposed estimator yields a higher improvement in Segmental Signal-to-Noise Ratio (S-SNR) and lower Log-Spectral Distortion (LSD) in two different noisy environments compared to other estimators.

Throughput Enhancement in AUDTWMN Using Throwboxes – An Overview

Delay and Disruption Tolerant Networking is part of the Inter Planetary Internet with primary application being Deep Space Networks. Its Terrestrial form has interesting research applications such as Alagappa University Delay Tolerant Water Monitoring Network which doubles as test beds for improvising its routing scheme. DTNs depend on node mobility to deliver packets using a store-carry-and forward paradigm. Throwboxes are small and inexpensive stationary devices equipped with wireless interfaces and storage. We propose the use of Throwboxes to enhance the contact opportunities of the nodes and hence improve the Throughput. The enhancement is evaluated using Alunivdtnsim, a desktop simulator in C language and the results are graphically presented.

Brain MRI Segmentation and Lesions Detection by EM Algorithm

In Multiple Sclerosis, pathological changes in the brain results in deviations in signal intensity on Magnetic Resonance Images (MRI). Quantitative analysis of these changes and their correlation with clinical finding provides important information for diagnosis. This constitutes the objective of our work. A new approach is developed. After the enhancement of images contrast and the brain extraction by mathematical morphology algorithm, we proceed to the brain segmentation. Our approach is based on building statistical model from data itself, for normal brain MRI and including clustering tissue type. Then we detect signal abnormalities (MS lesions) as a rejection class containing voxels that are not explained by the built model. We validate the method on MR images of Multiple Sclerosis patients by comparing its results with those of human expert segmentation.

The Application of Hadamard Matrixes in the SNR Enhancement of Optical Time-Domain Reflectometry(OTDR)

Results in one field necessarily give insight into the others, and all have much potential for scientific and technological application. The Hadamard-transform technique once been applied to the spectrometry also has its use in the SNR Enhancement of OTDR. In this report, a new set of code (Simplex-codes) is discussed and where the addition gain of SNR come from is implied.

Quantum Computation using Two Component Bose-Einstein Condensates

Quantum computation using qubits made of two component Bose-Einstein condensates (BECs) is analyzed. We construct a general framework for quantum algorithms to be executed using the collective states of the BECs. The use of BECs allows for an increase of energy scales via bosonic enhancement, resulting in two qubit gate operations that can be performed at a time reduced by a factor of N, where N is the number of bosons per qubit. We illustrate the scheme by an application to Deutsch-s and Grover-s algorithms, and discuss possible experimental implementations. Decoherence effects are analyzed under both general conditions and for the experimental implementation proposed.