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    Using Statistical Pattern Recognition on Gene Expression Data for Prediction of Cancer

    , M.Sc. Thesis Sharif University of Technology Hajiloo, Mohsen (Author) ; Rabiee, Hamid Reza (Supervisor)
    Abstract
    The classification of different tumor types is of great importance in cancer diagnosis and drug discovery. However, most previous cancer classification studies are clinical based and have limited diagnostic ability. Cancer classification using gene expression data is known to contain the keys for addressing the fundamental problems relating to cancer diagnosis. The recent advent of DNA microarray technique has made simultaneous monitoring of thousands of gene expressions possible. With this abundance of gene expression data, researchers have started to explore the possibilities of cancer classification using gene expression data and quite a number of Pattern Recognition approaches have been... 

    Determination of Occupant Comfortability in Ttall Buildings with Outrigger and Aerodynamic Characteristics

    , M.Sc. Thesis Sharif University of Technology Hajiloo, Amin (Author) ; Bakhshi, Ali (Supervisor)
    Abstract
    In recent years, in Iran, like other countries tall buildings have been constructed as a solution to space limitation problem and modern architectural matters. By increase in building height,the flexibility against wind force increase, therefore necessitating the study of buildings behavior against wind force. Traditionally most of the research done, have dealt with performance of the buildings, probability of the failure, and the serviceability level all of which relates to the amount of force in elements, the stress existing in the structure, and the amount of displacement. A substantial factor in structures, especially in tall buildings, is the comfortability of their occupants which... 

    On the control of unknown continuous time chaotic systems by applying takens embedding theory

    , Article Chaos, Solitons and Fractals ; Volume 109 , April , 2018 , Pages 53-57 ; 09600779 (ISSN) Kaveh, H ; Salarieh, H ; Hajiloo, R ; Sharif University of Technology
    Elsevier Ltd  2018
    Abstract
    In this paper, a new approach to control continuous time chaotic systems with an unknown governing equation and limitation on the measurement of states, has been investigated. In many chaotic systems, disability to measure all of the states is a usual limitation, like in some economical, biological and many other engineering systems. Takens showed that a chaotic attractor has an astonishing feature in which it can embed to a mathematically similar attractor by using time series of one of the states. The new embedded attractor saves much information from the original attractor. This phenomenon has been deployed to present a new way to control continuous time chaotic systems, when only one of... 

    Chaos control in delayed phase space constructed by the Takens embedding theory

    , Article Communications in Nonlinear Science and Numerical Simulation ; Volume 54 , 2018 , Pages 453-465 ; 10075704 (ISSN) Hajiloo, R ; Salarieh, H ; Alasty, A ; Sharif University of Technology
    Elsevier B.V  2018
    Abstract
    In this paper, the problem of chaos control in discrete-time chaotic systems with unknown governing equations and limited measurable states is investigated. Using the time-series of only one measurable state, an algorithm is proposed to stabilize unstable fixed points. The approach consists of three steps: first, using Takens embedding theory, a delayed phase space preserving the topological characteristics of the unknown system is reconstructed. Second, a dynamic model is identified by recursive least squares method to estimate the time-series data in the delayed phase space. Finally, based on the reconstructed model, an appropriate linear delayed feedback controller is obtained for... 

    Adaptive delayed feedback chaos control of a class of uncertain chaotic systems subject to external disturbance

    , Article Iranian Journal of Science and Technology - Transactions of Mechanical Engineering ; Volume 43 , 2019 , Pages 517-525 ; 22286187 (ISSN) Hajiloo, R ; Shahrokhi, M ; Salarieh, H ; Sharif University of Technology
    Springer International Publishing  2019
    Abstract
    In this paper, an adaptive nonlinear delayed feedback control is proposed for stabilizing an unstable periodic orbit (UPO) of a class of uncertain chaotic systems using the sliding mode approach. The chaotic system is subjected to external disturbances with unknown bounds. Using the Lyapunov stability theorem and the concept of sliding mode control, an adaptive delayed feedback controller has been designed. The controller and adaptation law guarantee the asymptotic stability of the closed loop system on a periodic trajectory which can be sufficiently close to the UPO of the chaotic system. The capability of the proposed control method in stabilizing the UPO of chaotic systems is established... 

    Model-free chaos control in a chaotic henon-like system using takens embedding theory

    , Article 5th International Conference on Control, Instrumentation, and Automation, ICCIA 2017, 21 November 2017 through 23 November 2017 ; Volume 2018-January , 2018 , Pages 80-85 ; 9781538621349 (ISBN) Hajiloo, R ; Salarieh, H ; Alasty, A ; Sharif University of Technology
    Institute of Electrical and Electronics Engineers Inc  2018
    Abstract
    In this paper, the problem of chaos control in a chaotic Henon-like system without using the governing equations of the system is investigated. It is also assumed that the system has only one measurable state. The time-series of the measurable state is used to stabilize chaos by a three-step method. First, using Takens embedding theory, a delayed phase space is reconstructed preserving the topological characteristics of the system. Then, an appropriate dynamic model is identified to estimate the time-series data in the reconstructed phase space. Finally, the unstable fixed point of the system is stabilized using an appropriate linear delayed feedback controller with controller gains... 

    Fuzzy support vector machine: An efficient rule-based classification technique for microarrays

    , Article BMC Bioinformatics ; Volume 14, Issue SUPPL13 , 2013 ; 14712105 (ISSN) Hajiloo, M ; Rabiee, H. R ; Anooshahpour, M ; Sharif University of Technology
    2013
    Abstract
    Background: The abundance of gene expression microarray data has led to the development of machine learning algorithms applicable for tackling disease diagnosis, disease prognosis, and treatment selection problems. However, these algorithms often produce classifiers with weaknesses in terms of accuracy, robustness, and interpretability. This paper introduces fuzzy support vector machine which is a learning algorithm based on combination of fuzzy classifiers and kernel machines for microarray classification.Results: Experimental results on public leukemia, prostate, and colon cancer datasets show that fuzzy support vector machine applied in combination with filter or wrapper feature selection... 

    Chaos Control in Delayed phase Space Constructed by the Takens' Embedding Theory

    , M.Sc. Thesis Sharif University of Technology Hajiloo, Reza (Author) ; Salarieh, Hassan (Supervisor) ; Alasty, Aria (Supervisor)
    Abstract
    One of the most surprising lessons of dynamical systems theory is that the phase spaces of simple nonlinear systems may contain strange attractors. For certain simple systems, such as pendulum, direct observations of the phase space and finding strange attractors are possible. But physical systems in which all the relevant dynamical variables can be simultaneously monitored are relatively scarce. Takens’ theory shows how a time-series of measurements of a single observable state can be often used to reconstruct qualitative features of the phase space of the system. In this research, using the time-series of one measurable state, an algorithm is proposed to control chaos. The approach... 

    Investigation of the Reaction of Dithiocarbamic Acid Salts with Carbonyl Compounds (Ketones and Aldehydes), Epoxides and Ortho Esters

    , M.Sc. Thesis Sharif University of Technology Hajiloo Shayegan, Mojtaba (Author) ; Mahmoodi Hashemi, Mohammed (Supervisor) ; Ziyaei Halimehjani, Azim (Co-Advisor)
    Abstract
    In the first section, for the first time, a reaction of dithiocarbamic acid salts with carbonyl compounds has been investigated in the presence of BF3.OEt2. The reaction is temperature dependent meaning that the reaction gives two different products at low and high temperatures. At 15-20 0C, the 2-iminium-1,3-dithietane is the main product.As the reaction temperature goes up, formation of gem-bis(dithiocarbamates) is dominant.In addition, deprotection of gem-bis(dithiocarbamates) was investigated by using of nitric acid as the only deprotecting agent. The structure of a 2-iminium-1,3-dithietane was confirmed by X-ray crystallographic analysis.
    In the second and third sections, in our aim... 

    A misbehavior‐tolerant multipath routing protocol for wireless Ad hoc networks [electronic resource]

    , Article International Journal of Research in Wireless Systems (IJRWS) ; Vol. 2, Issue 9, pp. , Sep. 2013 Sedghi, H. (Haniyeh) ; Pakravan, Mohammad Reza ; Aref, Mohammad Reza ; Sharif University of Technology
    Abstract
    Secure routing is a major key to service maintenance in ad hoc networks. Ad hoc nature exposes the network to several types of node misbehavior or attacks. As a result of the resource limitations in such networks nodes may have a tendency to behave selfishly. Selfish behavior can have drastic impacts on network performance. We have proposed a Misbehavior-Tolerant Multipath Routing protocol (MTMR) which detects and punishes all types of misbehavior such as selfish behavior, wormhole, sinkhole and grey-hole attacks. The protocol utilizes a proactive approach to enforce cooperation. In addition, it uses a novel data redirection method to mitigate the impact of node misbehavior on network... 

    Analysis and data-based reconstruction of complex nonlinear dynamical systems : using the methods of stochastic processes

    , Book Rahimi Tabar, M. Reza
    Springer International Publishing  2019
    Abstract
    This book focuses on a central question in the field of complex systems: Given a fluctuating (in time or space), uni- or multi-variant sequentially measured set of experimental data (even noisy data), how should one analyse non-parametrically the data, assess underlying trends, uncover characteristics of the fluctuations (including diffusion and jump contributions), and construct a stochastic evolution equation?
    Here, the term "non-parametrically" exemplifies that all the functions and parameters of the constructed stochastic evolution equation can be determined directly from the measured data.
    The book provides an overview of methods that have been developed for the analysis of... 

    Fabrication and Study of Mechanical Behavior of in Situ Microfibrillar- Reinforced Composites of Polypropylene/Recycled Poly (Ethylene Terephthalate)Toughened with Rubber Particles

    , M.Sc. Thesis Sharif University of Technology Motahari, Tayebeh (Author) ; Bagheri, Reza (Supervisor) ; Alizadeh, Reza (Supervisor)
    Abstract
    The use of polymers is increasing day by day due to low density, reasonable price and ability to produce different products. On the other hand, the accumulation of polymer wastes in nature is one of the environmental concerns in today's world, which is mainly due to the widespread use of polymers in the packaging industry and disposable applications. In order to solve this problem, recycling is recommended as the most appropriate and economical solution. Because in addition to consuming polymer waste, it also saves energy and reduces carbon footprint.Polyethylene terephthalate (PET) is one of the polymeric materials which; It has a special place in the packaging industry and is widely used... 

    Characterization of Mechanical Properties of Polymer Nanocomposites with Spherical Inhomogeneities

    , M.Sc. Thesis Sharif University of Technology Goudarzi, Taha (Author) ; Naghdabadi, Reza (Supervisor) ; Bagheri, Reza (Supervisor)
    Abstract
    The improved properties of nanocomposites are not achievable with conventional composites. Scale effect is one the most important parameters in the physical and mechanical properties of polymeric nanocomposites. One of the physical phenomena, which can be related to the scale effect, is the very large interface between the nanoparticles and the polymeric matrices. Motional behavior and conformation of polymeric chains change near the nanoparticles surfaces. Due to high interface of the nanoparticles with the polymeric matrices the amount of these types of changes in the polymeric chains are so large that can change the physical and mechanical properties of polymeric nanocomposites. In this... 

    On small uniquely vertex-colourable graphs and Xu's conjecture [electronic resource]

    , Article Discrete Mathematics ; Volume 223, Issues 1–3, 28 August 2000, Pages 93–108 Daneshgar, A. (Amir) ; Naserasr, Reza ; Sharif University of Technology
    Abstract
    Consider the parameter Λ(G) = |E(G)| - |V(G)|(k - 1) + (k2) for a k-chromatic graph G, on the set of vertices V(G) and with the set of edges E(G). It is known that Λ(G)≥0 for any k-chromatic uniquely vertex-colourable graph G (k-UCG), and, S.J. Xu has conjectured that for any k-UCG, G, Λ(G) = 0 implies that cl(G) = k; in which cl(G) is the clique number of G. In this paper, first, we introduce the concept of the core of a k-UCG as an induced subgraph without any colour-class of size one, and without any vertex of degree k - 1. Considering (k, n)-cores as k-UCGs on n vertices, we show that edge-minimal (k, 2k)-cores do not exist when k ≥ 3, which shows that for any edge-minimal k-UCG on 2k... 

    Molecular Dynamics Simulation of Nano-Diamond Synthesis by Shock Wave

    , Ph.D. Dissertation Sharif University of Technology Mahnama, Maryam (Author) ; Naghdabadi, Reza (Supervisor) ; Movahhedy, Mohammad Reza (Co-Advisor)
    Abstract
    In the field of high-pressure material science, diverse carbon systems under pressure have been intensively studied with interest in synthesizing new phases. A variety of these synthetic phases which have met various applications in today technology are called the amorphous diamond. The pressure-induced structural transition of carbonaceous material to amorphous diamond is realized by shock compression and rapid quenching. The shock compression and rapid quenching generate the high pressure (several GPa) and the temperature (several hundred K) in a fraction of a microsecond.Since the mechanical and electrical properties of the synthetic diamond are severely sensitive to the atomic structure,... 

    An Experimental Study of the Effects of Sweep Wing on the Boundary Layer of 2D Wing

    , M.Sc. Thesis Sharif University of Technology Tabrizian, Arshia (Author) ; Soltani, Mohammad Reza (Supervisor) ; Davari, Ali Reza (Co-Advisor)
    Abstract
    The behavior of boundary layer under the effect of the sweep angle is considered. The measurements were performed by a pitot tube rake. Three models with various sweep angels at angles of attack -2, 0 and 2 degree were tested. Both tip and root of all wings were closed by flat plates in order to prevent the flow to roll-up. However the flow field on the wing was still three-dimensional because of the sweep angle. The velocity on the wing has two components; longitudinal and lateral. The cross flow emerges due to the non-equilibrium of pressure and centrifugal forces. The velocity profiles showed that the magnitude of cross flow was stronger near the leading edge of the wing. The cross flow... 

    Synthesis of Antibiotic-eluting Chitosan-based Composite Coating by Electrophoretic Deposition for Bone Implants

    , M.Sc. Thesis Sharif University of Technology Bakhshi, Zahra (Author) ; Simchi, Abdol Reza (Supervisor) ; Bagheri, Reza (Supervisor)
    Abstract
    Drug-eluting bone implant coatings is a new era that has gained a lot of attention in recent years. In this matter, drug is loaded in the coating and local and targeted release of the drug results in preventing the side effects of implantation and increasing the healing process of the patient. The aim of this project was to synthesis the antibiotic eluting chitosan-based composite using electrophoretic deposition for bone implant coating. By using electrophoretic deposition chitosan and chitosan-bioglass composite coatings were synthesized. Then the probability of loading of drug into coating by using electrophoretic deposition was evaluated and by using this process chitosan and... 

    Solving High-Dimensional Differential Equations Using Machine Learning

    , M.Sc. Thesis Sharif University of Technology Saffarieh, Pooya (Author) ; Razvan, Mohammad Reza (Supervisor) ; Moghadasi, Reza (Co-Supervisor)
    Abstract
    The numerical solution of differential equations in high dimensions has always been a challenge and has been associated with various computational difficulties. These equations appear naturally in a variety of problems such as financial mathematics, control, and physics, and their optimal solution with high accuracy and speed can open new windows on new applications. Conventional methods such as Finite element and finite difference method in high dimensions lose their efficiency, which is a barrier to fast and accurate calculation of these equations. In this dissertation first, we review some theoretical and practical aspects of deep neural networks and then we try to examine the recent... 

    Topological Defects in Confined Nematics by Planar Anchoring

    , M.Sc. Thesis Sharif University of Technology Seyed Nejad, Reza (Author) ; Ejtehadi, Mohammad Reza (Supervisor) ; Mozaffari, Mohammad Reza (Supervisor)
    Abstract
    Confining nematic liquid crystal between two curved boundary conditions while the nematic molecules have a degenerate planar anchoring leads to complex and beautiful textures of molecular disparagement(defect) in the bulk and on the surfaces. Such the liquid crystal shells are made with double-emulsion techniques in microfluidic devices have provided applications for micro-scale colloidal linkers.In this work, we have numerically minimized the elastic energy in one-constant approximation in present of Fournier’s degenerate surface potential with finite element method. The nematic shell is confined between two spherical surfaces that we have studied the final energies and their related... 

    Coarse Grained Molecular Dynamics Simulation of DNA Nanomechanics

    , Ph.D. Dissertation Sharif University of Technology Fathizadeh, Arman (Author) ; Ejtehadi, Mohammad Reza (Supervisor) ; Khoei, Amir Reza (Co-Advisor)
    Abstract
    DNA is the most important biological molecule which contains all the genetic information of living organisms. The mechanical behavior of this molecule has a significant role on its functions. In this study, we introduce a model to for DNA nanomechanics. This model is called rigid base-pair chain in which every base pair is considered as a rigid object. The base-pairs only interact with their nearest neighbors via a harmonic potential. We have used this model to study the nanomechanical behavior of the DNA such as its bending, twisting, and stretching elasticity. Also the model was successful to predict the structure of DNA minicircles with extra amount of twist. After that we used the model...