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Finite State Automata Generator for DNA Motif Template as Preparation Step for Motif Mining

There are many tools and S/W systems to generate finite state automata, FSA, due to its importance in modeling and simulation and its wide variety of applications. However, no appropriate tool that can generate finite state automata, FSA, for DNA motif template due to the huge size of the motif template. In addition to the optional paths in the motif structure which are represented by the gap. These reasons lead to the unavailability of the specifications of the automata to be generated. This absence of specifications makes the generating process very difficult. This paper presents a novel algorithm to construct FSAs for DNA motif templates. This research is the first research presents the problem of generating FSAs for DNA motif templates and offers novel algorithm to accomplish this. It is tested using many simple and compound motif templates of different sizes and various numbers of gaps that have unlimited ranges of intervals. The motifs sizes are up to 2M Bases. The motif templates include up to 2000 gaps and the interval of a gap is [1,100] up to [1, 1000000]. All of these cases were processed successfully.

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Publication Date
Mon Jan 30 2023
Journal Name
Iraqi Journal Of Science
Numerical Blow-up Time of a One-Dimensional Semilinear Parabolic Equation with a Gradient Term

  This paper deals with numerical approximations of a one-dimensional semilinear parabolic equation with a gradient term. Firstly, we derive the semidiscrete problem of the considered problem and discuss its convergence and blow-up properties. Secondly, we propose both Euler explicit and implicit finite differences methods with a non-fixed time-stepping procedure to estimate the numerical blow-up time of the considered problem. Finally, two numerical experiments are given to illustrate the efficiency, accuracy, and numerical order of convergence of the proposed schemes.

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Publication Date
Sat Dec 30 2023
Journal Name
Iraqi Journal Of Science
Numerical Approximations of a One-Dimensional Time-Fractional Semilinear Parabolic Equation

     The time fractional order differential equations are fundamental tools that are used for modeling neuronal dynamics. These equations are obtained by substituting the time derivative of order  where , in the standard equation with the Caputo fractional formula. In this paper, two implicit difference schemes: the linearly Euler implicit and the Crank-Nicolson (CN) finite difference schemes, are employed in solving a one-dimensional time-fractional semilinear equation with Dirichlet boundary conditions. Moreover, the consistency, stability and convergence of the proposed schemes are investigated. We prove that the IEM is unconditionally stable, while CNM is conditionally stable. Furthermore, a comparative study between these two s

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Publication Date
Tue Nov 01 2016
Journal Name
Journal Of Engineering
Effect of Electrical Discharge Machining and Shot Blast Peening Parameters on Fatigue Life of AISI D2 Die Steel

The present paper deals with studying the effect of electrical discharge machining (EDM) and shot blast peening parameters on work piece fatigue lives using copper and graphite electrodes. Response surface methodology (RSM) and the design of experiment (DOE) were used to plan and design the experimental work matrices for two EDM groups of experiments using kerosene dielectric alone, while the second was treated by the shot blast peening processes after EDM machining. To verify the experimental results, the analysis of variance (ANOVA) was used to predict the EDM models for high carbon high chromium AISI D2 die steel. The work piece fatigue lives in terms of safety factors after EDM models were developed by FEM using ANSY

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Publication Date
Fri Jul 21 2023
Journal Name
Journal Of Engineering
EFFCT OF HOOPS AND COLUMN AXIAL LOAD ON SHEAR STRENGTH OF HIGH-STRENGTH FIBER REINFORCED BEAM-COLUMN JOINTS

A reinforced concrete frame is referred as "RIGID FRAMES". However, researches indicate that the Beam-Column joint (BCJ) is definitely not rigid. In addition, extensive research shows that failure may occur at the joint instead of in the beam or the column. Joint failure is known to be a catastrophic type which is difficult to repair.
This study was carried out to investigate the effect of hoops and column axial load on the shear strength of high-strength fiber reinforced Beam-Column Joints by using a numerical model based on finite element method using computer program ANSYS (Version 11.0). The variables are: diameter of hoops and magnitude of column axial load.
The theoretical results obtained from ANSYS program are in a good a

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Publication Date
Sat Jul 22 2023
Journal Name
Journal Of Engineering
Replacement of Line Loads acting on slabs to equivalent uniformly Distributed Loads

This study aims to derive a general relation between line loads that acting on two-way slab system and the equivalent uniformly distributed loads. This relation will be so useful to structural designer that are used to working with a uniformly distributed load and enable them to use the traditional methods for analysis of two-way systems (e.g. Direct Design Method). Two types of slab systems, Slab System with Beams and Flat Slab Systems, have been considered in this study to include the effect of aspect ratio and type of slab on the proposed relation. Five aspect ratios, l2/l1 of 0.5, 0.75, 1.0, 1.5 and 2.0, have been considered for both types of two-way systems.
All necessary finite element analyses have been executed with SAFE Soft

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Publication Date
Fri Jan 01 2010
Journal Name
International Journal Of Communication Networks And Distributed Systems
A novel Radon-based multi-carrier direct sequence code division multiple access transceiver design and simulation

Multi-carrier direct sequence code division multiple access (MC-DS-CDMA) has emerged recently as a promising candidate for the next generation broadband mobile networks. Multipath fading channels have a severe effect on the performance of wireless communication systems even those systems that exhibit efficient bandwidth, like orthogonal frequency division multiplexing (OFDM) and MC-DS-CDMA; there is always a need for developments in the realisation of these systems as well as efficient channel estimation and equalisation methods to enable these systems to reach their maximum performance. A novel MC-DS-CDMA transceiver based on the Radon-based OFDM, which was recently proposed as a new technique in the realisation of OFDM systems, will be us

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Publication Date
Thu Dec 09 2021
Journal Name
Iraqi Journal Of Pharmaceutical Sciences ( P-issn 1683 - 3597 E-issn 2521 - 3512)
An Overview of Some Plant Based Products With Hepatoprotective Activity

In folk medicine there are various medicinal amalgamation possessing hepatoprotective activity. This activity is of significance because several toxins cause liver injury. Hence, many pharmaceutical companies are targeting herbal medicines for the treatment of liver abnormalities and towards evolving a safe and effective formulation with desired route of administration. In current review we have focused on the studies showing hepatoprotective effect using marine compounds and plant derived compounds. Liver disorder, a global health problem, usually include acute or chronic hepatitis, heptoses, and cirrhosis. It may be due to toxic chemicals and certain antibiotics. Uncontrolled consumption of alcohol also affects liver in an unhealthy wa

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Publication Date
Mon Mar 23 2020
Journal Name
Journal Of Engineering
Survey Study of Factional Order Controllers

This is a survey study that presents recent researches concerning factional controllers. It presents several types of fractional order controllers, which are extensions to their integer order counterparts. The fractional order PID controller has a dominant importance, so thirty-one paper are presented for this controller. The remaining types of controllers are presented according to the number of papers that handle them; they are fractional order sliding mode controller (nine papers), fuzzy fractional order sliding mode controller (five papers), fractional order lag-lead compensator (three papers), fractional order state feedback controller (three papers), fractional order fuzzy logic controller (three papers). Finally,

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Publication Date
Mon Nov 01 2010
Journal Name
Al-nahrain Journal Of Science
Publication Date
Wed Dec 01 2021
Journal Name
Structures
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