Sharif Digital Repository

The Smith-Waterman algorithm, which is founded on a dynamic programming approach, serves as a precise tool for aligning biological sequences. Despite its utility, the algorithm grapples with computational complexity and resource demands. Various implementations across multi-core, GPU, and FPGA platforms have sought to expedite the algorithm, yet frequently encounter issues such as suboptimal speedup, heightened reliance on external memory resources, and an exclusive focus on the forward step of the algorithm. To tackle these challenges, this study introduces an architecture aimed at accelerating the SmithWaterman algorithm on FPGA platforms. Our architecture capitalizes on a pipeline... 

Two tetranuclear Au2Cu2 cluster complexes [Au2Cu2(μ-(PPh2)2py)2(μ-OH)](PF6)3, 2, and [Au2Cu2Cl2(μ-(PPh2)2 py)2](OTf)2, 4, have been prepared by the reactions of precursor complexes [Au2(μ-(PPh2)2py)2](OTf)2, 1, and [Cu2(μ-(PPh2)2py)2(μ-SMe2)(OTf)2], 3, with [Cu(NCCH3)4]PF6 and AuCl(SMe2), respectively. The crystal structures of complexes 2 and 4 were determined by X-ray crystallography, indicating a butterfly-shaped Au2Cu2 metal core for 2 and a planar-shaped Au2Cu2 metal core for 4. In complex 2, the Cu atoms occupy the edge-sharing bond, while in complex 4, alternating Au and Cu atoms occupy the tetragon vertices. The optical properties of the complexes were investigated by experimental... 

Herein we describe the synthesis and characterization of the first platinum(IV) metal-organic cage [(Me3PtIV)8(byp)12](OTf)8 (2), in which the organometallic moieties trimethylplatinum(IV) (PtMe3) occupied the corners of a cubane structure and 4,4′-bipyridine ligands used as linkers. The first-principles density functional theory calculations showed that the highest occupied molecular orbitals were localized on the PtMe3 moieties, while the lowest unoccupied molecular orbitals were distributed on the organic linkers. © 2021 American Chemical Society  

Herein we describe the synthesis and characterization of the first platinum(IV) metal-organic cage [(Me3PtIV)8(byp)12](OTf)8 (2), in which the organometallic moieties trimethylplatinum(IV) (PtMe3) occupied the corners of a cubane structure and 4,4′-bipyridine ligands used as linkers. The first-principles density functional theory calculations showed that the highest occupied molecular orbitals were localized on the PtMe3 moieties, while the lowest unoccupied molecular orbitals were distributed on the organic linkers. © 2021 American Chemical Society  

Nano-sized particles of manganese oxides have been prepared by a very simple and cheap process using a decomposing aqueous solution of manganese nitrate at 100 °C. Scanning electron microscopy, transmission electron microscopy and X-ray diffraction spectrometry have been used to characterize the phase and the morphology of the manganese oxide. The nano-sized manganese oxide shows efficient catalytic activity toward water oxidation and the epoxidation of olefins in the presence of cerium(iv) ammonium nitrate and hydrogen peroxide, respectively  

Despite the fact that control charts are able to trigger a signal when a process has changed, it does not indicate when the process change has begun. The time difference between the changing point and a signal of a control chart could cause confusions on the sources of the problems. Knowing the exact time of a process change would help to reduce the time for identification of the special cause. In this article, a model for the change-point problem is first introduced and a maximum-likelihood estimator (MLE) is applied when a linear trend disturbance is present. Then, Monte Carlo simulation is applied in order to evaluate the accuracy and the precision performances of the proposed... 

Incorporation of calcium(ii), zinc(ii) and aluminium(iii) to manganese oxides greatly improved the activity of manganese oxide towards the epoxidation of olefins in the presence of anhydrous tert-butyl hydroperoxide as an oxidant  

Crystal-size distribution (CSD) is one of the most important parameters in sugar production. The objective is to grow crystals of uniform sizes or narrow CSD. CSD appears to be determined by the growth-rate history of the crystals and the relative supersaturation (SS) of the solution from which crystals growth takes place. Three methods for preparation of nucleation seeds were described and used for industrial crystallization of raw and white sugars; these are wet milling filtered sugar (ML), agitating saturated solution (AS) and powdered sugars (PD). Rosin-Rammler (RR) and mathematical models were adopted to investigate CSD and the uniformity of the produced crystals. Higher uniformity... 

This paper concerns the design of a neural state observer for nonlinear dynamic systems with noisy measurement channels and in the presence of small model errors. The proposed observer consists of three feedforward neural parts, two of which are MLP universal approximators, which are being trained off-line and the last one being a Linearly Parameterized Neural Network (LPNN), which is being updated on-line. The off-line trained parts are able to generate state estimations instantly and almost accurately, if there are not catastrophic errors in the mathematical model used. The contribution of the on-line adapting part is to compensate the remainder estimation error due to uncertain parameters... 

The six-coordinated silver(I) complex [Au2Ag(μ-(PPh2)2py)2(OTf)2](OTf), 4 (py = pyridine, OTf = CF3SO3), and the five-coordinated silver(I) complex [Au2Ag(acetone)(μ-(PPh2)2py)2](PF6)3, 6, were prepared by the reaction of the precursor complexes 1(OTf)2 and 1(PF6)2, in which 1 = [Au2(μ-(PPh2)2py)2]2+, with 1 equiv of Ag(OTf) in dichloromethane and excess of Ag(PF6) in a mixture of dichloromethane/acetone, respectively. Also, the five-coordinated silver(I) complex [Au2Ag(μ-(PPh2)2py)2(py)(OTf)](OTf)2, 5, was obtained by the reaction of 4 with pyridine. The clusters 4-6 were characterized using multinuclear NMR spectroscopy and elemental microanalysis. The single-crystal X-ray diffraction... 

This paper deals with the problem of optimal large-angle single-axis maneuvers of a flexible spacecraft with simultaneous vibration suppression of elastic modes. A spacecraft model with a cylindrical hub and one flexible appendage and tip mass is considered. Gravity gradient torque is considered as a disturbance torque. Multilayer perceptron neural networks are used to design a Neural Optimal Controller (NOC) for this multivariable non-linear maneuver. For NOC training, an off-line training procedure based on backpropagation through time algorithm is developed to minimize the general quadratic cost function in forward and backward pass stages. The proposed controller is also applicable to... 

This paper presents synthesis and photophysical investigation of a very rare type of the ReI diimine complexes, [Re(diimine)(CO)3(OPR3)]+, R = Ph, Cy; diimine – phenanthroline and neocuproine, containing monodentate (unsupported) phosphine oxide ligands. The obtained compounds have been structurally characterized in solid phase by using XRD crystallography, which revealed unusual distortions in the pseudo octahedral rhenium environment, which may be ascribed to intramolecular interligand (phosphine oxide – diimine) interaction rather than to crystal packing effect. Optimization of the ground state structure of these molecules with the DFT method also confirmed intramolecular origin of the... 

Learning a foreign language encompasses a process of trial and error that can lead to the progression of the learner's interlanguage, meaning that the learners make use of their language knowledge that receives feedback and brings about progress through diagnosis of the problems and being corrected by the teacher. Therefore, there exists a need to analyze the underlying reasons causing the students to remain taciturn with a low willingness to communicate (WTC) during a language class. There has been much work done investigating the role of the learner's stable personal characteristics (traits) along with their situational changes at a specific time (states) that influence the student's... 

Accurate system identification (SI) is essential for flight controller design of unmanned aerial vehicles and microaerial vehicles (MAVs). SI can be performed either in frequency or time domain using flight test data. As flight testing is often costly and may even lead to catastrophic events before some flight stability analysis is at hand, a low-cost 5 degree-of-freedom free motion platform (FMP) is designed and used for initial identification of MAVs via wind tunnel testing. A typical MAV is constructed as a test case and equipped with inertial sensors for testing and validation purposes. The proposed FMP allows for both rotational as well as translational motions that in turn provide for... 

Using 3-D scanned data to analyze and extract pore network plays a vital role in investigation of porous media's characteristics. In this paper, a new simple method is developed to detect pores and throats for analyzing the connectivity and permeability of the network. This automated method utilizes some of the common and well-known image processing functions which are widely accessible by researchers and this has led to an easy algorithm implementation. In this method, after polishing and quality control of images, using city-block distance function and watershed segmentation algorithm, pores and throats are detected and 3-D network is produced. This method can also be applied on 2-D images... 

In this paper, we try to recognize and distinguish different groups of arrhythmia using novel features which have been obtained from the heart rate's phase space in recent years. For this purpose, we used Triangular Phase Space Mapping (TPSM) and Parabolic Phase Space Mapping (PPSM). For recognition, we used three groups of 15 subjects using the Physionet database (Arrhythmia, Congestive Heart Failure (CHF), and Atrial Fibrillation (AF)) with Normal Sinus Rhythm (NSR). The obtained features discriminate arrhythmia from NSR by p