Abstract: 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.
Abstract: We discuss the convergence property of the minimum residual (MINRES) method for the solution of complex shifted Hermitian system (αI + H)x = f. Our convergence analysis shows that the method has a faster convergence than that for real shifted Hermitian system (Re(α)I + H)x = f under the condition Re(α) + λmin(H) > 0, and a larger imaginary part of the shift α has a better convergence property. Numerical experiments show such convergence properties.
Abstract: Supply network management adopts a systematic
and integrative approach to managing the operations and
relationships of various parties in a supply network. The objective
of the manufactures in their supply network is to reduce inventory
costs and increase customer satisfaction levels. One way of doing
that is to synchronize delivery performance. A supply network can
be described by nodes representing the companies and the links
(relationships) between these nodes. Uncertainty in delivery time
depends on type of network relationship between suppliers. The
problem is to understand how the individual uncertainties influence
the total uncertainty of the network and identify those parts of the
network, which has the highest potential for improving the total
delivery time uncertainty.
Abstract: Constant amplitude fatigue crack growth (FCG) tests
were performed on dissimilar metal welded plates of Type 316L
Stainless Steel (SS) and IS 2062 Grade A Carbon steel (CS). The
plates were welded by TIG welding using SS E309 as electrode. FCG
tests were carried on the Side Edge Notch Tension (SENT)
specimens of 5 mm thickness, with crack initiator (notch) at base
metal region (BM), weld metal region (WM) and heat affected zones
(HAZ). The tests were performed at a test frequency of 10 Hz and at
load ratios (R) of 0.1 & 0.6. FCG rate was found to increase with
stress ratio for weld metals and base metals, where as in case of
HAZ, FCG rates were almost equal at high ΔK. FCG rate of HAZ of
stainless steel was found to be lowest at low and high ΔK. At
intermediate ΔK, WM showed the lowest FCG rate. CS showed
higher crack growth rate at all ΔK. However, the scatter band of data
was found to be narrow. Fracture toughness (Kc) was found to vary
in different locations of weldments. Kc was found lowest for the
weldment and highest for HAZ of stainless steel. A novel method of
characterizing the FCG behavior using an Infrared thermography
(IRT) camera was attempted. By monitoring the temperature rise at
the fast moving crack tip region, the amount of plastic deformation
was estimated.
Abstract: Currently, a large number of license activities (Early
Site Permits, Combined Operating License, reactor certifications,
etc.), are pending for review before the United States Nuclear
Regulatory Commission (US NRC). Much of the senior staff at the
NRC is now committed to these review and licensing actions. To
address this additional workload, the NRC has recruited a large
number of new Regulatory Staff for dealing with these and other
regulatory actions such as the US Fleet of Research and Test Reactors
(RTRs). These reactors pose unusual demands on Regulatory Staff
since the US Fleet of RTRs, although few (32 Licensed RTRs as of
2010), they represent a broad range of reactor types, operations, and
research and training aspects that nuclear reactor power plants (such
as the 104 LWRs) do not pose. The NRC must inspect and regulate
all these facilities. This paper addresses selected training topics and
regulatory activities providedNRC Inspectors for RTRs.
Abstract: Reachability graph (RG) generation suffers from the
problem of exponential space and time complexity. To alleviate the
more critical problem of time complexity, this paper presents the new
approach for RG generation for the Petri net (PN) models of parallel
processes. Independent RGs for each parallel process in the PN
structure are generated in parallel and cross-product of these RGs
turns into the exhaustive state space from which the RG of given
parallel system is determined. The complexity analysis of the
presented algorithm illuminates significant decrease in the time
complexity cost of RG generation. The proposed technique is
applicable to parallel programs having multiple threads with the
synchronization problem.
Abstract: This paper provides an introduction into the
evolution of information and communication technology and illustrates its usage in the work domain. The paper is sub-divided into two parts. The first part gives an overview over the different
phases of information processing in the work domain. It starts by
charting the past and present usage of computers in work
environments and shows current technological trends, which are likely to influence future business applications. The second part
starts by briefly describing, how the usage of computers changed business processes in the past, and presents first Ambient
Intelligence applications based on identification and localization
information, which are already used in the production and retail sector. Based on current systems and prototype applications, the
paper gives an outlook of how Ambient Intelligence technologies could change business processes in the future.
Abstract: This study aims to assess the environmental hazards
from radon exhalation rate in the soil samples in selected locations in
Iraqi Kurdistan, using passive (CR-39NTDs) and active (RAD7)
detecting method. Radon concentration, effective radium content and
radon exhalation rate were estimated in soil samples that collected at
the depth level of 30 cm inside 124 houses. The results show that the
emanation rate for radon gas was variation from location to other,
depending on the geological formation. Most health risks come from
emanation of radon and its daughter due to its contribution for indoor
radon, so the results showed that there is a linear relationship
between the ratio of soil and indoor radon concentration (CSoil Rn222/
Cindoor Rn222) and the effective radium content in soil samples. The
results show that radon concentration has high and low values in
Hajyawa city and Er. Tyrawa Qr, respectively. A comparison
between our results with that mentioned in international reports was
done.
Abstract: The experimental results on combustion of rice husk
in a conical fluidized bed combustor (referred to as the conical FBC)
using silica sand as the bed material are presented in this paper. The
effects of excess combustion air and combustor loading as well as the
sand bed height on the combustion pattern in FBC were investigated.
Temperatures and gas concentrations (CO and NO) along over the
combustor height as well as in the flue gas downstream from the ash
collecting cyclone were measured. The results showed that the axial
temperature profiles in FBC were explicitly affected by the
combustor loading whereas the excess air and bed height were found
to have minor influences on the temperature pattern. Meanwhile, the
combustor loading and the excess air significantly affected the axial
CO and NO concentration profiles; however, these profiles were
almost independent of the bed height. The combustion and thermal
efficiencies for this FBC were quantified for different operating
conditions.
Abstract: In rotating machinery one of the critical components
that is prone to premature failure is the rolling bearing.
Consequently, early warning of an imminent bearing failure is much
critical to the safety and reliability of any high speed rotating
machines. This study is concerned with the application of Recurrence
Quantification Analysis (RQA) in fault detection of rolling element
bearings in rotating machinery. Based on the results from this study it
is reported that the RQA variable, percent determinism, is sensitive
to the type of fault investigated and therefore can provide useful
information on bearing damage in rolling element bearings.
Abstract: To investigate the behavior of sheet metals during
forming tailor welded blanks (TWB) of various thickness made via
Co2 Laser welding are under consideration. These blanks are formed
used two different forming methods of rubber as well as the
conventional punch and die methods. The main research objective is
the effects of using a rubber die instead of a solid one the
displacement of the weld line and the press force needed for forming.
Specimens with thicknesses of 0.5, 0.6, 0.8 and 1mm are subjected to
Erichsen two dimensional tests and the resulted force for each case
are compared. This is followed by a theoretical and numerical study
of press force and weld line displacement. It is concluded that using
rubber pad forming (RPF) causes a reduction in weld line
displacement and an increase in the press force.
Abstract: Field experiments were carried out at Owo, southwest Nigeria to evaluate the effect of different tillage practices (zero tillage with mulch (ZTM), row tillage (RT) and conventional tillage (CT), and with or without oil palm bunch ash plus poultry manure (OBA+PM) on soil chemical properties, growth and yield of ginger. The experiment was laid out in a randomized complete plot design with three replications. Soil chemical properties, growth and fresh rhizome yield reduced with frequency/intensity of tillage imposed while application of OBA+PM increased them. Among the tillage practices, the highest fresh rhizome yield (15.0t ha-1) was produced by ZTM which was significantly different from other tillage practices. Among the tillage – OBA+PM combinations, the most satisfactorily yield (20.1t ha-1) was produced by ZTM+OBA+PM while the lowest yield (15.7t ha-1) was in CT+OBA+PM.
Abstract: The main objective of this study was to determine the effects
of vermicompost and amino acids on the qualitative and quantitative yield of
chamomile. The experiment was conducted during the growing season of
2010 at the Alborz Medical Research Center. The Treatment groups consisted
of vermicompost (0, 5, 10, 15 and 20 tons/ha) and the sprays of amino acids
(budding stag, flowering stage, and budding + flowering stage). The
experimental design was a factorial experiment based on Randomized
Complete Block Design (RCBD) with three replications. The present results
have shown that the highest plant height, flower head diameter, fresh and dry
flower yield and significant essential oil content were obtained by using 20-
ton vermicompost per hectare. Effects of amino acids were similar to those
seen in vermicompost treatment and all measured traits were seen to be
significant after the spray of amino acids at the budding + flowering stage).
Abstract: In order to study of The Effect of seed inoculation
with Pseudomonas putida+Bacillus lentus on yield and yield
components of wheat (Triticum aestivum L.) cultivars, an experiment
was carried out as factorial based on Randomized Complete Block
Design (RCBD) in Agricultural Research Station of Shahrood
University of Technology. Results showed that inoculation with
Pseudomonas putida+Bacillus lentus promoted seed germination.
Also, inoculation with Pseudomonas putida+Bacillus lentus
significantly affected grain yield, Number of spikes per m2,
Number of grain per spike and 1000-seed weight and There was not
statistically significant difference between Chamran and Pishtaz
cultivars . Finally, the dosages of chemical fertilizers currently
applied in commercial wheat field in Iran (Shahrood region) could be
reduced through proper combination of Pseudomonas
putida+Bacillus lentus inoculation plus fertilization.
Abstract: In H.264/AVC video encoding, rate-distortion
optimization for mode selection plays a significant role to achieve
outstanding performance in compression efficiency and video quality.
However, this mode selection process also makes the encoding
process extremely complex, especially in the computation of the ratedistortion
cost function, which includes the computations of the sum
of squared difference (SSD) between the original and reconstructed
image blocks and context-based entropy coding of the block. In this
paper, a transform-domain rate-distortion optimization accelerator
based on fast SSD (FSSD) and VLC-based rate estimation algorithm
is proposed. This algorithm could significantly simplify the hardware
architecture for the rate-distortion cost computation with only
ignorable performance degradation. An efficient hardware structure
for implementing the proposed transform-domain rate-distortion
optimization accelerator is also proposed. Simulation results
demonstrated that the proposed algorithm reduces about 47% of total
encoding time with negligible degradation of coding performance.
The proposed method can be easily applied to many mobile video
application areas such as a digital camera and a DMB (Digital
Multimedia Broadcasting) phone.
Abstract: Conventional concentrically-braced frame (CBF)
systems have limited drift capacity before brace buckling and related
damage leads to deterioration in strength and stiffness. Self-centering
concentrically-braced frame (SC-CBF) systems have been developed
to increase drift capacity prior to initiation of damage and minimize
residual drift. SC-CBFs differ from conventional CBFs in that the
SC-CBF columns are designed to uplift from the foundation at a
specified level of lateral loading, initiating a rigid-body rotation
(rocking) of the frame. Vertically-aligned post-tensioning bars resist
uplift and provide a restoring force to return the SC-CBF columns to
the foundation (self-centering the system). This paper presents a
parametric study of different prototype buildings using SC-CBFs.
The bay widths of the SC-CBFs have been varied in these buildings
to study different geometries. Nonlinear numerical analyses of the
different SC-CBFs are presented to illustrate the effect of frame
geometry on the behavior and dynamic response of the SC-CBF
system.
Abstract: An appropriate project delivery system (PDS) is crucial
to the success of a construction projects. Case-based Reasoning (CBR)
is a useful support for PDS selection. However, the traditional CBR
approach represents cases as attribute-value vectors without taking
relations among attributes into consideration, and could not calculate
the similarity when the structures of cases are not strictly same.
Therefore, this paper solves this problem by adopting the Relational
Case-based Reasoning (RCBR) approach for PDS selection,
considering both the structural similarity and feature similarity. To
develop the feature terms of the construction projects, the criteria and
factors governing PDS selection process are first identified. Then
feature terms for the construction projects are developed. Finally, the
mechanism of similarity calculation and a case study indicate how
RCBR works for PDS selection. The adoption of RCBR in PDS
selection expands the scope of application of traditional CBR method
and improves the accuracy of the PDS selection system.
Abstract: The motion of a sphere moving along the axis of a
rotating viscous fluid is studied at high Reynolds numbers and
moderate values of Taylor number. The Higher Order Compact
Scheme is used to solve the governing Navier-Stokes equations. The
equations are written in the form of Stream function, Vorticity
function and angular velocity which are highly non-linear, coupled
and elliptic partial differential equations. The flow is governed by
two parameters Reynolds number (Re) and Taylor number (T). For
very low values of Re and T, the results agree with the available
experimental and theoretical results in the literature. The results are
obtained at higher values of Re and moderate values of T and
compared with the experimental results. The results are fourth order
accurate.
Abstract: In this experimental study, performance of a counter
flow Ranque-Hilsch vortex tube (RHVT) with threads cut on its inner
surface was investigated experimentally (pitch is 1 and 2 mm). The
inner diameter of the vortex tube used was D=9 mm and the ratio of
the tube’s length to diameter was L/D=12. The experimental system
was a thermodynamic open system. Flow was controlled by a valve
on the hot outlet side, where the valve was changed from a nearly
closed position to its nearly open position. Fraction of cold flow (ξ) =
0.1-0.9, was determined under 300 and 350 kPa pressurized air. All
experimental data were compared with each other, the maximum
heating performance of the RHVT system was found to be 38.2 oC
and the maximum cooling performance of the RHVT in this study
was found to be -30.9 oC at pitch 1 mm.
Abstract: A numerical analysis of a reinforced concrete (RC) wall under missile impact loading is presented in this study. The model created by Technical Research Center of Finland was used. The commercial finite element code, LS-DYNA was used to analyze. The structural components of the reinforced concrete wall, missile and their contacts are fully modeled. The material nonlinearity with strain rate effects considering damage and failure is included in the analysis. The results of analysis were verified with other research results. The case-studies with different reinforcement ratios were conducted to investigate the influence of reinforcement on the punching behavior of walls under missile impact.