Abstract: Modeling and simulation of biochemical reactions is of great interest in the context of system biology. The central dogma of this re-emerging area states that it is system dynamics and organizing principles of complex biological phenomena that give rise to functioning and function of cells. Cell functions, such as growth, division, differentiation and apoptosis are temporal processes, that can be understood if they are treated as dynamic systems. System biology focuses on an understanding of functional activity from a system-wide perspective and, consequently, it is defined by two hey questions: (i) how do the components within a cell interact, so as to bring about its structure and functioning? (ii) How do cells interact, so as to develop and maintain higher levels of organization and functions? In recent years, wet-lab biologists embraced mathematical modeling and simulation as two essential means toward answering the above questions. The credo of dynamics system theory is that the behavior of a biological system is given by the temporal evolution of its state. Our understanding of the time behavior of a biological system can be measured by the extent to which a simulation mimics the real behavior of that system. Deviations of a simulation indicate either limitations or errors in our knowledge. The aim of this paper is to summarize and review the main conceptual frameworks in which models of biochemical networks can be developed. In particular, we review the stochastic molecular modelling approaches, by reporting the principal conceptualizations suggested by A. A. Markov, P. Langevin, A. Fokker, M. Planck, D. T. Gillespie, N. G. van Kampfen, and recently by D. Wilkinson, O. Wolkenhauer, P. S. Jöberg and by the author.
Abstract: The objective of this manuscript is to find area under the plasma concentration- time curve (AUC) for multiple doses of salbutamol sulphate sustained release tablets (Ventolin® oral tablets SR 8 mg, GSK, Pakistan) in the group of 18 healthy adults by using computational mathematics techniques. Following the administration of 4 doses of Ventolin® tablets 12 hourly to 24 healthy human subjects and bioanalysis of obtained plasma samples, plasma drug concentration-time profile was constructed. AUC, an important pharmacokinetic parameter, was measured using integrated equation of multiple oral dose regimens. The approximated AUC was also calculated by using computational mathematics techniques such as repeated rectangular, repeated trapezium and repeated Simpson's rule and compared with exact value of AUC calculated by using integrated equation of multiple oral dose regimens to find best computational mathematics method that gives AUC values closest to exact. The exact values of AUC for four consecutive doses of Ventolin® oral tablets were 150.5819473, 157.8131756, 164.4178231 and 162.78 ng.h/ml while the closest values approximated AUC values were 149.245962, 157.336171, 164.2585768 and 162.289224 ng.h/ml, respectively as found by repeated rectangular rule. The errors in the approximated values of AUC were negligible. It is concluded that all computational tools approximated values of AUC accurately but the repeated rectangular rule gives slightly better approximated values of AUC as compared to repeated trapezium and repeated Simpson's rules.
Abstract: Variational methods for optical flow estimation are
known for their excellent performance. The method proposed by Brox
et al. [5] exemplifies the strength of that framework. It combines
several concepts into single energy functional that is then minimized
according to clear numerical procedure. In this paper we propose
a modification of that algorithm starting from the spatiotemporal
gradient constancy assumption. The numerical scheme allows to
establish the connection between our model and the CLG(H) method
introduced in [18]. Experimental evaluation carried out on synthetic
sequences shows the significant superiority of the spatial variant of
the proposed method. The comparison between methods for the realworld
sequence is also enclosed.
Abstract: This paper discusses a systematic design of a Σ-Δ fractional-N Phase-Locked Loop based on HDL behavioral modeling. The proposed design consists in describing the mixed behavior of this PLL architecture starting from the specifications of each building block. The HDL models of critical PLL blocks have been described in VHDL-AMS to predict the different specifications of the PLL. The effect of different noise sources has been efficiently introduced to study the PLL system performances. The obtained results are compared with transistor-level simulations to validate the effectiveness of the proposed models for wireless applications in the frequency range around 2.45 GHz.
Abstract: Sudoku is a kind of logic puzzles. Each puzzle consists
of a board, which is a 9×9 cells, divided into nine 3×3 subblocks
and a set of numbers from 1 to 9. The aim of this puzzle is to
fill in every cell of the board with a number from 1 to 9 such
that in every row, every column, and every subblock contains each
number exactly one. Sudoku puzzles belong to combinatorial problem
(NP complete). Sudoku puzzles can be solved by using a variety of
techniques/algorithms such as genetic algorithms, heuristics, integer
programming, and so on. In this paper, we propose a new approach for
solving Sudoku which is by modelling them as block-world problems.
In block-world problems, there are a number of boxes on the table
with a particular order or arrangement. The objective of this problem
is to change this arrangement into the targeted arrangement with the
help of two types of robots. In this paper, we present three models
for Sudoku. We modellized Sudoku as parameterized multi-agent
systems. A parameterized multi-agent system is a multi-agent system
which consists of several uniform/similar agents and the number of
the agents in the system is stated as the parameter of this system. We
use Temporal Logic of Actions (TLA) for formalizing our models.
Abstract: In this work we will present a new approach for shot transition auto-detection. Our approach is based on the analysis of Spatio-Temporal Video Slice (STVS) edges extracted from videos. The proposed approach is capable to efficiently detect both abrupt shot transitions 'cuts' and gradual ones such as fade-in, fade-out and dissolve. Compared to other techniques, our method is distinguished by its high level of precision and speed. Those performances are obtained due to minimizing the problem of the boundary shot detection to a simple 2D image partitioning problem.
Abstract: The effect of muscle loss due to transfemoral
amputation, on energy expenditure of hip joint and individual
residual muscles was simulated. During swing phase of gait, with
each muscle as an ideal force generator, the lower extremity was
modeled as a two-degree of freedom linkage, for which hip and knee
were joints. According to results, muscle loss will not lead to higher
energy expenditure of hip joint, as long as other parameters of limb
remain unaffected. This finding maybe due to the role of biarticular
muscles in hip and knee joints motion. Moreover, if hip flexors are
removed from the residual limb, residual flexors, and if hip extensors
are removed, residual extensors will do more work. In line with the
common practice in transfemoral amputation, this result demonstrates
during transfemoral amputation, it is important to maintain the length
of residual limb as much as possible.
Abstract: A numerical study is made of laminar, unsteady flow
behind a rotationally oscillating circular cylinder using a recently
developed higher order compact (HOC) scheme. The stream function
vorticity formulation of Navier-Stokes (N-S) equations in cylindrical
polar coordinates are considered as the governing equations. The
temporal behaviour of vortex formation and relevant streamline
patterns of the flow are scrutinized over broad ranges of two
externally specified parameters namely dimensionless forced
oscillating frequency Sf and dimensionless peak rotation rate αm for
the Reynolds-s number Re = 200. Excellent agreements are found
both qualitatively and quantitatively with the existing experimental
and standard numerical results.
Abstract: We report in this paper the procedure of a system of
automatic speech recognition based on techniques of the dynamic
programming. The technique of temporal retiming is a technique
used to synchronize between two forms to compare. We will see how
this technique is adapted to the field of the automatic speech
recognition. We will expose, in a first place, the theory of the
function of retiming which is used to compare and to adjust an
unknown form with a whole of forms of reference constituting the
vocabulary of the application. Then we will give, in the second place,
the various algorithms necessary to their implementation on machine.
The algorithms which we will present were tested on part of the
corpus of words in Arab language Arabdic-10 [4] and gave whole
satisfaction. These algorithms are effective insofar as we apply them
to the small ones or average vocabularies.
Abstract: Fractal analyses of successive event of explosion
earthquake and harmonic tremor recorded at Semeru volcano were
carried out to investigate the dynamical system regarding to their
generating mechanism. The explosive eruptions accompanied by
explosion earthquakes and following volcanic tremor which are
generated by continuous emission of volcanic ash. The fractal
dimension of successive event of explosion and harmonic tremor was
estimated by Critical Exponent Method (CEM). It was found that the
method yield a higher fractal dimension of explosion earthquakes and
gradually decrease during the occurrence of harmonic tremor, and can
be considerably as correlated complexity of the source mechanism
from the variance of fractal dimension.
Abstract: Investigation of soil properties like Cation Exchange
Capacity (CEC) plays important roles in study of environmental
reaserches as the spatial and temporal variability of this property
have been led to development of indirect methods in estimation of
this soil characteristic. Pedotransfer functions (PTFs) provide an
alternative by estimating soil parameters from more readily available
soil data. 70 soil samples were collected from different horizons of
15 soil profiles located in the Ziaran region, Qazvin province, Iran.
Then, multivariate regression and neural network model (feedforward
back propagation network) were employed to develop a
pedotransfer function for predicting soil parameter using easily
measurable characteristics of clay and organic carbon. The
performance of the multivariate regression and neural network model
was evaluated using a test data set. In order to evaluate the models,
root mean square error (RMSE) was used. The value of RMSE and
R2 derived by ANN model for CEC were 0.47 and 0.94 respectively,
while these parameters for multivariate regression model were 0.65
and 0.88 respectively. Results showed that artificial neural network
with seven neurons in hidden layer had better performance in
predicting soil cation exchange capacity than multivariate regression.
Abstract: The Egyptian Bacillus thuringiensis isolate (M5) produce crystal proteins that is toxic against insects was irradiated with UV light to induce mutants. Upon testing 10 of the resulting mutants for their toxicity against cotton leafworm larvae, the three mutants 62, 64 and 85 proved to be the most toxic ones. Upon testing these mutants along with their parental isolate by SDS-PAGE analysis of spores-crystals proteins as well as vegetative cells proteins, new induced bands appeared in the three mutants by UV radiation and also they showed disappearance of some other bands as compared with the wild type isolate. Multiplex PCR technique, with five sets of specific primers, was used to detect the three types of cryI genes cryIAa, cryIAb and cryIAc. Results showed that these three genes exist, as distinctive bands, in the wild type isolate (M5) as well as in mutants 62 and 85, while the mutant 64 had two distinctive bands of cryIAb and cryIAc genes, and a faint band of cryI Aa gene. Finally, these results revealed that mutant 62 is considered as the promising mutant since it is UV resistant, highly toxic against Spodoptera littoralis and active against a wide range of Lepidopteran insects.
Abstract: This work shows a basic philosophical difficulty in the constructivist foundations of the cognitive posracionalist psychology of Vittorio Guidano. This is a difficulty caused by the problem of the existential crisis. It will be analyzed how Guidano-s suggestions about this problem depend on felt experience. Then it will appear how Guidano-s philosophy and psychotherapy must turn towards a phenomenological approach. Finally, some references are given about Eugen Gendlin-s philosophy which could be considered as a radical way to confront these questions.
Abstract: Extensive rainfall disaggregation approaches have been developed and applied in climate change impact studies such as flood risk assessment and urban storm water management.In this study, five rainfall models that were capable ofdisaggregating daily rainfall data into hourly one were investigated for the rainfall record in theChangi Airport, Singapore. The objectives of this study were (i) to study the temporal characteristics of hourly rainfall in Singapore, and (ii) to evaluate the performance of variousdisaggregation models. The used models included: (i) Rectangular pulse Poisson model (RPPM), (ii) Bartlett-Lewis Rectangular pulse model (BLRPM), (iii) Bartlett-Lewis model with 2 cell types (BL2C), (iv) Bartlett-Lewis Rectangular with cell depth distribution dependent on duration (BLRD), and (v) Neyman-Scott Rectangular pulse model (NSRPM). All of these models werefitted using hourly rainfall data ranging from 1980 to 2005 (which was obtained from Changimeteorological station).The study results indicated that the weight scheme of inversely proportional variance could deliver more accurateoutputs for fitting rainfall patterns in tropical areas, and BLRPM performedrelatively better than other disaggregation models.
Abstract: Ontologies play an important role in semantic web applications and are often developed by different groups and continues to evolve over time. The knowledge in ontologies changes very rapidly that make the applications outdated if they continue to use old versions or unstable if they jump to new versions. Temporal frames using frame versioning and slot versioning are used to take care of dynamic nature of the ontologies. The paper proposes new tags and restructured OWL format enabling the applications to work with the old or new version of ontologies. Gene Ontology, a very dynamic ontology, has been used as a case study to explain the OWL Ontology with Temporal Tags.
Abstract: Decision support systems are usually based on
multidimensional structures which use the concept of hypercube.
Dimensions are the axes on which facts are analyzed and form a
space where a fact is located by a set of coordinates at the
intersections of members of dimensions. Conventional
multidimensional structures deal with discrete facts linked to discrete
dimensions. However, when dealing with natural continuous
phenomena the discrete representation is not adequate. There is a
need to integrate spatiotemporal continuity within multidimensional
structures to enable analysis and exploration of continuous field data.
Research issues that lead to the integration of spatiotemporal
continuity in multidimensional structures are numerous. In this paper,
we discuss research issues related to the integration of continuity in
multidimensional structures, present briefly a multidimensional
model for continuous field data. We also define new aggregation
operations. The model and the associated operations and measures
are validated by a prototype.
Abstract: Moral decisions are considered as an intuitive process,
while conscious reasoning is mostly used only to justify those
intuitions. This problem is described in few different dual-process
theories of mind, that are being developed e.g. by Frederick and
Kahneman, Stanovich and Evans. Those theories recently evolved
into tri-process theories with a proposed process that makes ultimate
decision or allows to paraformal processing with focal bias..
Presented experiment compares the decision patterns to the
implications of those models.
In presented study participants (n=179) considered different
aspects of trolley dilemma or its footbridge version and decided after
that.
Results show that in the control group 70% of people decided to
use the lever to change tracks for the running trolley, and 20% chose
to push the fat man down the tracks. In contrast, after experimental
manipulation almost no one decided to act. Also the decision time
difference between dilemmas disappeared after experimental
manipulation.
The result supports the idea of three co-working processes:
intuitive (TASS), paraformal (reflective mind) and algorithmic
process.
Abstract: Hazard rate estimation is one of the important topics
in forecasting earthquake occurrence. Forecasting earthquake
occurrence is a part of the statistical seismology where the main
subject is the point process. Generally, earthquake hazard rate is
estimated based on the point process likelihood equation called the
Hazard Rate Likelihood of Point Process (HRLPP). In this research,
we have developed estimation method, that is hazard rate single
decrement HRSD. This method was adapted from estimation method
in actuarial studies. Here, one individual associated with an
earthquake with inter event time is exponentially distributed. The
information of epicenter and time of earthquake occurrence are used
to estimate hazard rate. At the end, a case study of earthquake hazard
rate will be given. Furthermore, we compare the hazard rate between
HRLPP and HRSD method.
Abstract: A multimedia presentation system refers to the integration of a multimedia database with a presentation manager which has the functionality of content selection, organization and playout of multimedia presentations. It requires high performance of involved system components. Starting from multimedia information capture until the presentation delivery, high performance tools are required for accessing, manipulating, storing and retrieving these segments, for transferring and delivering them in a presentation terminal according to a playout order. The organization of presentations is a complex task in that the display order of presentation contents (in time and space) must be specified. A multimedia presentation contains audio, video, images and text media types. The critical decisions for presentation construction include what the contents are, how the contents are organized, and once the decision is made on the organization of the contents of the presentation, it must be conveyed to the end user in the correct organizational order and in a timely fashion. This paper introduces a framework for specification of multimedia presentations and describes the design of sample presentations using this framework from a multimedia database.
Abstract: Regarding the multi-media property of internet and the facilities that can be provided for the users, the purpose of this paper is to investigate the users- behavioral patterns and the impact of internet on taboos of marriage. For this purpose a survey technique on the sample size amounted 403 students of governmental guidance schools of city of Mashhad in country of Iran were considered. The results showed, the process of using various internet environments depends on the degree of the users- familiarity with these sites. In order to clarify the effects of the Internet on the taboos of marriage, the non – internet parameters also considered to be controlled. The ttest held among the internet users and non-users, indicated that internet users possess lower taboos of marriage. Extraction of the effects of internet via considering the effects of non-internet parameters, indicate that addiction to the internet, creating a cordial atmosphere, emotional communication, and message attractive factors have significant effects on the family's traditional values.