Abstract: A new approach to predict the 3D structures of proteins by combining the knowledge-based method and Molecular Dynamics Simulation is presented on the chicken villin headpiece subdomain (HP-36). Comparative modeling is employed as the knowledge-based method to predict the core region (Ala9-Asn28) of the protein while the remaining residues are built as extended regions (Met1-Lys8; Leu29-Phe36) which then further refined using Molecular Dynamics Simulation for 120 ns. Since the core region is built based on a high sequence identity to the template (65%) resulting in RMSD of 1.39 Å from the native, it is believed that this well-developed core region can act as a 'nucleation center' for subsequent rapid downhill folding. Results also demonstrate that the formation of the non-native contact which tends to hamper folding rate can be avoided. The best 3D model that exhibits most of the native characteristics is identified using clustering method which then further ranked based on the conformational free energies. It is found that the backbone RMSD of the best model compared to the NMR-MDavg is 1.01 Å and 3.53 Å, for the core region and the complete protein, respectively. In addition to this, the conformational free energy of the best model is lower by 5.85 kcal/mol as compared to the NMR-MDavg. This structure prediction protocol is shown to be effective in predicting the 3D structure of small globular protein with a considerable accuracy in much shorter time compared to the conventional Molecular Dynamics simulation alone.
Abstract: The management of the health-care wastes is one of
the most important problems in Istanbul, a city with more than 12
million inhabitants, as it is in most of the developing countries.
Negligence in appropriate treatment and final disposal of the healthcare
wastes can lead to adverse impacts to public health and to the
environment. This paper employs a fuzzy multi-criteria group
decision making approach, which is based on the principles of fusion
of fuzzy information, 2-tuple linguistic representation model, and
technique for order preference by similarity to ideal solution
(TOPSIS), to evaluate health-care waste (HCW) treatment
alternatives for Istanbul. The evaluation criteria are determined
employing nominal group technique (NGT), which is a method of
systematically developing a consensus of group opinion. The
employed method is apt to manage information assessed using multigranularity
linguistic information in a decision making problem with
multiple information sources. The decision making framework
employs ordered weighted averaging (OWA) operator that
encompasses several operators as the aggregation operator since it
can implement different aggregation rules by changing the order
weights. The aggregation process is based on the unification of
information by means of fuzzy sets on a basic linguistic term set
(BLTS). Then, the unified information is transformed into linguistic
2-tuples in a way to rectify the problem of loss information of other
fuzzy linguistic approaches.
Abstract: There is a renewed interest in land use transport integration as a means of achieving sustainable accessibility. Such accessibility requires designing more than simply the transport network; it also requires attention to place (built form). Transitoriented development would appear to capture many of the criteria deemed important in land use transport integration. In Perth, Australia, there have been planning policies for the past 20 years requiring transit-oriented development around railway stations throughout the metropolitan area. While the policy intent, particularly at the State level, is clear the implementation of policy has been fairly ineffective. The first part of this paper provides an examination of state and local government planning and transport policies, evaluating them using a set of land use transport integration criteria considered all encompassing. This provides some insight into the extent of state and local government capacity to deliver land use transport integration. The second part of this paper examines the extent of implementation by examining existing and proposed land use around station precincts throughout metropolitan Perth. The findings of this research suggest that the capacity of state and local government to deliver land use transport integration is reasonable in a planning policy sense. Implementation, despite long policy lead times, has been lacking. It appears to be more effective where local planning controls have been suspended with new redevelopment authorities given powers to develop land around railway stations.
Abstract: This paper investigates the impact of the hand-hold
positions on both antenna performance and the specific absorption
rate (SAR) induced in the user-s head. A cellular handset with
external antenna operating at GSM-900 frequency is modeled and
simulated using a finite difference time-domain (FDTD)-based
platform SEMCAD-X. A specific anthropomorphic mannequin
(SAM) is adopted to simulate the user-s head, whereas a semirealistic
CAD-model of three-tissues is designed to simulate the
user-s hand. The results show that in case of the handset in hand close
to head at different positions; the antenna total efficiency gets
reduced to (14.5% - 5.9%) at cheek-position and to (27.5% to 11.8%)
at tilt-position. The peak averaged SAR1g values in head close to
handset without hand, are 4.67 W/Kg and 2.66 W/Kg at cheek and
tilt-position, respectively. Due to the presence of hand, the SAR1g in
head gets reduced to (3.67-3.31 W/Kg) at cheek-position and to
(1.84-1.64 W/Kg) at tilt-position, depending on the hand-hold
position.
Abstract: This paper will present the implementation of QoS
policy based system by utilizing rules on Access Control List (ACL)
over Layer 3 (L3) switch. Also presented is the architecture on that
implementation; the tools being used and the result were gathered.
The system architecture has an ability to control ACL rules which are
installed inside an external L3 switch. ACL rules used to instruct the
way of access control being executed, in order to entertain all traffics
through that particular switch. The main advantage of using this
approach is that the single point of failure could be prevented when
there are any changes on ACL rules inside L3 switches. Another
advantage is that the agent could instruct ACL rules automatically
straight away based on the changes occur on policy database without
configuring them one by one. Other than that, when QoS policy
based system was implemented in distributed environment, the
monitoring process can be synchronized easily due to the automate
process running by agent over external policy devices.
Abstract: Proton transfer and hydrogen bonding are two aspects
of the chemistry of hydrogen that respectively govern the behaviour
and structure of many molecules, both simple and complex. All the
theoretical enol and keto conformations of 1,3-diphenyl-1,3-
propandion known as dibenzoylmethane (DBM), have been
investigated by means of atoms in molecules (AIM) theory. It was
found that the most stable conformers are those stabilized by
hydrogen bridges.The aim of the present paper is a thorough
conformational analysis of DBM (with special attention on chelated
cis-enol conformers) in order to obtain detailed information on the
geometrical parameters, relative stabilities and rotational motion of
the phenyl groups. It is also important to estimate the barrier height
for ptoton transfer and hydrogen bond strength, which are the main
factors governing conformational stability.
Abstract: Polypropylene blended with natural oil and pigment additives has been studied. Different formulations for each compound were made into polybag used for cultivation of oil palm seedlings for strength and mechanical properties studies. One group of sample was exposed under normal sunlight to initiate degradation and another group of sample was placed under shaded area for five months. All samples were tested for tensile strength to determine the degradation effects. The tensile strength of directly exposed sunlight samples and shaded area showed up to 50% and 25% degradation respectively. However, similar reduction of Young’s modulus for all samples was found for both exposures. Structural investigations were done using FTIR to detect deformation. The natural additives that were used in the studies were all natural and environmental friendly
Abstract: The periodic mixed convection of a water-copper
nanofluid inside a rectangular cavity with aspect ratio of 3 is
investigated numerically. The temperature of the bottom wall of the
cavity is assumed greater than the temperature of the top lid which
oscillates horizontally with the velocity defined as u = u0 sin (ω t).
The effects of Richardson number, Ri, and volume fraction of
nanoparticles on the flow and thermal behavior of the nanofluid are
investigated. Velocity and temperature profiles, streamlines and
isotherms are presented. It is observed that when Ri < 1, heat transfer
rate is much greater than when Ri > 1. The higher value of Ri
corresponds to a lower value of the amplitude of the oscillation of
Num in the steady periodic state. Moreover, increasing the volume
fraction of the nanoparticles increases the heat transfer rate.
Abstract: The commercial white tyres are usually used for forklifts in food and medicine industries. Conventionally, silica is used as reinforcement in the tyres. However, the adhesion between silica particles and rubber is remarkably poor. To improve the problem of adhesion and hence enhance wear resistance, modification of silica surface is one of the solutions. In this work, the natural rubber compound blending with polyisoprene-coated silica prepared by admicellar polymerization technique was studied to compare with the natural rubber compound of unmodified silica. The surface characterization of modified silica was also examined by SEM, FTIR, and TGA. The results show that polyisoprene-coated silica/natural rubber compound gave better overall mechanical properties, especially wear resistance with the improvement of the adhesion between silica and natural rubber matrix that can be seen in the SEM micrograph.
Abstract: In this study the extracts of the Iraqi herb Tribulus
terrestris (Al-Hassage or Al-Kutub) was done by using of polar and
non polar solvents, then the biological activity of these extractants
was studied in three fields, First, the antibacterial activity (in vitro)
on gram positive bacteria (Staphylococcus aureus), and gram
negative bacteria (E. coli, Proteus vulgaris, Pseudomonas
aerugiuosa, and Klebsiella), all extracts showed considerable activity
against all bacteria. Second, the effect of extracts on free serum
testosterone level in male mice (in vivo), the alcoholic, and
acetonitrilic extracts showed significant (P < 0.05) increase in free
serum testosterone level, and we found that the extracts contained
compounds with less genotoxic effects in mice germ cells. 3rd, was to
study the effect of methanolic extract of T. terrestris in diabetes
management.
Abstract: The most important property of the Gene Ontology is
the terms. These control vocabularies are defined to provide
consistent descriptions of gene products that are shareable and
computationally accessible by humans, software agent, or other
machine-readable meta-data. Each term is associated with
information such as definition, synonyms, database references, amino
acid sequences, and relationships to other terms. This information has
made the Gene Ontology broadly applied in microarray and
proteomic analysis. However, the process of searching the terms is
still carried out using traditional approach which is based on keyword
matching. The weaknesses of this approach are: ignoring semantic
relationships between terms, and highly depending on a specialist to
find similar terms. Therefore, this study combines semantic similarity
measure and genetic algorithm to perform a better retrieval process
for searching semantically similar terms. The semantic similarity
measure is used to compute similitude strength between two terms.
Then, the genetic algorithm is employed to perform batch retrievals
and to handle the situation of the large search space of the Gene
Ontology graph. The computational results are presented to show the
effectiveness of the proposed algorithm.
Abstract: In this paper, a new automated methodology to detect the optic disc (OD) automatically in retinal images from patients with risk of being affected by Diabetic Retinopathy (DR) and Macular Edema (ME) is presented. The detection procedure comprises two independent methodologies. On one hand, a location methodology obtains a pixel that belongs to the OD using image contrast analysis and structure filtering techniques and, on the other hand, a boundary segmentation methodology estimates a circular approximation of the OD boundary by applying mathematical morphology, edge detection techniques and the Circular Hough Transform. The methodologies were tested on a set of 1200 images composed of 229 retinographies from patients affected by DR with risk of ME, 431 with DR and no risk of ME and 540 images of healthy retinas. The location methodology obtained 98.83% success rate, whereas the OD boundary segmentation methodology obtained good circular OD boundary approximation in 94.58% of cases. The average computational time measured over the total set was 1.67 seconds for OD location and 5.78 seconds for OD boundary segmentation.
Abstract: A new design approach for three-stage operational
amplifiers (op-amps) is proposed. It allows to actually implement a
symmetrical push-pull class-AB amplifier output stage for wellestablished
three-stage amplifiers using a feedforward
transconductance stage. Compared with the conventional design
practice, the proposed approach leads to a significant
improvement of the symmetry between the positive and the
negative op-amp step response, resulting in similar values of the
positive/negative settling time. The new approach proves to be very
useful in order to fully exploit the potentiality allowed by the op-amp
in terms of speed performances. Design examples in a commercial
0.35-μm CMOS prove the effectiveness of theproposed strategy.
Abstract: The strengthening of competitive advantage combined with the transformation of business strategy is necessary for the company to succeed in the time of market changes. And in this sense the innovation activities of the firm are exactly significanting. Virtual firms are a specific form of enterprise in which we can't suppose all regularities obtaining in other forms. The aim of the paper is to evaluate factors influencing the innovation activity of virtual firm with the determination of their importance and influences on the basis of selected metrics.
Abstract: In this paper, different nonlinear dynamics analysis techniques are employed to unveil the rich nonlinear phenomena of the electromagnetic system. In particular, bifurcation diagrams, time responses, phase portraits, Poincare maps, power spectrum analysis, and the construction of basins of attraction are all powerful and effective tools for nonlinear dynamics problems. We also employ the method of Lyapunov exponents to show the occurrence of chaotic motion and to verify those numerical simulation results. Finally, two cases of a chaotic electromagnetic system being effectively controlled by a reference signal or being synchronized to another nonlinear electromagnetic system are presented.
Abstract: In this work we report the recent progresses that have been achieved by our group in the last half decade on the field of computational proteomics. Specifically, we discuss the application of Molecular Dynamics Simulations and Electronic Structure Calculations in drug design, in the clarification of the structural and dynamic properties of proteins and enzymes and in the understanding of the catalytic and inhibition mechanism of cancer-related enzymes. A set of examples illustrate the concepts and help to introduce the reader into this important and fast moving field.
Abstract: The novelty proposed in this study is twofold and consists in the developing of a new color similarity metric based on the human visual system and a new color indexing based on a textual approach. The new color similarity metric proposed is based on the color perception of the human visual system. Consequently the results returned by the indexing system can fulfill as much as possibile the user expectations. We developed a web application to collect the users judgments about the similarities between colors, whose results are used to estimate the metric proposed in this study. In order to index the image's colors, we used a text indexing engine to facilitate the integration of visual features in a database of text documents. The textual signature is build by weighting the image's colors in according to their occurrence in the image. The use of a textual indexing engine, provide us a simple, fast and robust solution to index images. A typical usage of the system proposed in this study, is the development of applications whose data type is both visual and textual. In order to evaluate the proposed method we chose a price comparison engine as a case of study, collecting a series of commercial offers containing the textual description and the image representing a specific commercial offer.
Abstract: According to Rostler method (ASTM D 2006), saturates content of bitumen is determined based on its reactivity to sulphuric acid. While Corbett method (ASTM D 4124) based on its polarity level. This paper presents results from the study on the effect of saturates content determined by two different fractionation methods on the rheological and aging characteristics of bitumen. The result indicated that the increment of saturates content tended to reduce all the rheological characteristics concerned. Bitumen became less elastic, less viscous, and less resistant to plastic deformation, but became more resistant to fatigue cracking. After short and long term aging process, the treatment effect coefficients of saturates decreased, saturates became thicker due to aging process. This study concludes that saturates is not really stable or reactive in aging process. Therefore, the reactivity of saturates should be considered in bitumen aging index
Abstract: In this paper, a new design technique for enhancing
bandwidth that improves the performance of a conventional
microstrip patch antenna is proposed. This paper presents a novel
wideband probe fed inverted slotted microstrip patch antenna. The
design adopts contemporary techniques; coaxial probe feeding,
inverted patch structure and slotted patch. The composite effect of
integrating these techniques and by introducing the proposed patch,
offer a low profile, broadband, high gain, and low cross-polarization
level. The results for the VSWR, gain and co-and cross-polarization
patterns are presented. The antenna operating the band of 1.80-2.36
GHz shows an impedance bandwidth (2:1 VSWR) of 27% and a gain
of 10.18 dBi with a gain variation of 1.12 dBi. Good radiation
characteristics, including a cross-polarization level in xz-plane less
than -42 dB, have been obtained.
Abstract: Islamic institutions in Malaysia play a variety of
socioeconomic roles such as poverty alleviation. To perform this role,
these institutions face a major task in identifying the poverty group.
Most of these institutions measure and operationalize poverty from
the monetary perspective using variables such as income, expenditure
or consumption. In practice, most Islamic institutions in Malaysia use
the monetary approach in measuring poverty through the
conventional Poverty Line Income (PLI) method and recently, the
had al kifayah (HAK) method using total necessities of a household
from an Islamic perspective. The objective of this paper is to present
the PLI and also the HAK method. This micro-data study would
highlight the similarities and differences of both the methods.A
survey aided by a structured questionnaire was carried out on 260
selected head of households in the state of Selangor. The paper
highlights several demographic factors that are associated with the
three monetary indicators in the study, namely income, PLI and
HAK. In addition, the study found that these monetary variables are
significantly related with each other.