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Cloning, Expression and Purification of Yeast Fumarase Enzyme, in Order to Find Small Organic Molecules as its Allosteric Modulators
, M.Sc. Thesis Sharif University of Technology ; Kalhor, Hamid Reza (Supervisor)
Abstract
Enzymes are biological catalysts that carry out chemical reactions in a stereoselective manner. Fumarate hydratase (abbreviated as fumarase) is a metabolic enzyme found in both mitochondrial and cytosolic isoforms. Its mitochondrial form functions in the Krebs cycle (TCA) and specifically converts fumarate into L-malate. In recent studies, the role of the cytosolic form of this enzyme in the repair of DNA double-strand breaks has been elucidated. Fumarase and its precursors are indirectly related to many metabolic pathways, including phenylalanine and tyrosine metabolism, urea cycle, etc. As a result, it is very important to know the factors affecting this enzyme and its activity. In this...
Analyzing the Interplay of Power Management and Communication Reliability of Wireless Networks in Embedded Applications
, M.Sc. Thesis Sharif University of Technology ; Ejlali, Alireza (Supervisor)
Abstract
Due to safety critical applications of the embedded systems, reliability is one of the most important properties of these systems. Wireless networks also have error prone data transmission channels and limited power consumption. Therefore reliability and power conservation are two vital characteristics of the wireless network especially in embedded applications. Since achieving to a desirable level of data reliability is power consuming, we must consider a trade-off between power consumption and data reliability. In wireless networks power consumption can be categorized into: power consumption in wireless devices and power consumption in data transmission. For decrement of wireless devices...
Confidential Access to the Outsourced Relational Data
, M.Sc. Thesis Sharif University of Technology ; Jalili, Rasool (Supervisor)
Abstract
In recent years, there has been a trend toward outsourcing data to the cloud provider. These companies must tackle the data security challenges. Generally these parties are assumed to be honest but curious. In past years, the research communities have been investigating different solution to ensure confidentiality.
In addition to data confidentiality access and pattern confidentiality is a high-priority issue in some cases so. potential adversary should be unable to drive information from the observed access pattern to the outsourced data. Despite the fact that there are more investigation in the field of data confidentiality, concern over data security are the rise in outsourcing data,...
In addition to data confidentiality access and pattern confidentiality is a high-priority issue in some cases so. potential adversary should be unable to drive information from the observed access pattern to the outsourced data. Despite the fact that there are more investigation in the field of data confidentiality, concern over data security are the rise in outsourcing data,...
Practical next bit test for evaluating pseudorandom sequences
, Article Scientia Iranica ; Volume 16, Issue 1 D , 2009 , Pages 19-33 ; 10263098 (ISSN) ; Eghlidos, T ; Sharif University of Technology
2009
Abstract
The Next Bit Test briefly states that a sequence is random if and only if, given any i bits of the sequence, it is not possible to predict the next bit of the sequence with a probability of success significantly greater than 1/2. In 1996, Sadeghiyan and Mohajeri proposed a so-called "new universal test for bit strings", based on the theoretical next bit test. In this paper, we study different aspects of this test and show its weakness. Then, we improve it both theoretically and practically for better classification of the sequences. As a result, a Practical Next Bit (PNB) test is introduced in two Global and Local versions and a histogram, which gives an impression of the global evaluation...
Concurrent design of Schottky diode limiter and LNA
, Article Analog Integrated Circuits and Signal Processing ; Volume 107, Issue 3 , 2021 , Pages 543-550 ; 09251030 (ISSN) ; Medi, A ; Sharif University of Technology
Springer
2021
Abstract
In this paper concurrent design of Schottky diode based limiter and low noise amplifier (LNA), based on noise matching, is investigated to achieve minimum noise figure (NF) of the receiver chain. In design procedure of the LNA, the noise figure is minimum, gain at central frequency is 14.5 dB, and limiter structure tolerates up to 5 W continuous wave input power. In the proposed concurrent design, a pass-band filter is applied at the LNA output to attenuate undesired out-of-band signals. In the proposed design, the limiter-LNA is implemented with a 0.25 µm gate length AlGaAs/InGaAs pHEMT process. Measured noise figure of chain is 2.7 dB and average gain over 8.5–9.5 GHz frequency range and...
Concurrent design of Schottky diode limiter and LNA
, Article Analog Integrated Circuits and Signal Processing ; Volume 107, Issue 3 , 2021 , Pages 543-550 ; 09251030 (ISSN) ; Medi, A ; Sharif University of Technology
Springer
2021
Abstract
In this paper concurrent design of Schottky diode based limiter and low noise amplifier (LNA), based on noise matching, is investigated to achieve minimum noise figure (NF) of the receiver chain. In design procedure of the LNA, the noise figure is minimum, gain at central frequency is 14.5 dB, and limiter structure tolerates up to 5 W continuous wave input power. In the proposed concurrent design, a pass-band filter is applied at the LNA output to attenuate undesired out-of-band signals. In the proposed design, the limiter-LNA is implemented with a 0.25 µm gate length AlGaAs/InGaAs pHEMT process. Measured noise figure of chain is 2.7 dB and average gain over 8.5–9.5 GHz frequency range and...
Design, Fabrication and Model-based Control of Brachiation Robot
, M.Sc. Thesis Sharif University of Technology ; Meghdari, Ali (Supervisor)
Abstract
In the beginning of the 90’s a new type of robot was introduced by Fukuda. The brachiation is a type of mobile robot that moves from branch to branch like a long-armed ape. Here, as a new innovation, optimal control is used to obtain the optimal trajectories for two different problems. The first problem is “Brachiation between fixed branches with different distance and height” and the second is “Brachiating and catching the moving target branch”. Theoretical results show that the control effort in the proposed method is reduced by 25% in comparison with the “Target Dynamics” method which was proposed in prior articles for this robot. The obtained optimal trajectory also minimizes the...
Euler-lagrange Equation for a Delay Variational Problem
, M.Sc. Thesis Sharif University of Technology ; Hesaraki, Mahmoud (Supervisor)
Abstract
In the first chapter of this thesis we consider the simplest problem of calculus of variation with mixed boundary conditions and we obtain the Euler-Lagrange equation. We will see that the work here is very similar to the work for Dirichlet boundary conditions. In chapter two we investigate the sufficient condition for the existence of solution. Here we will see the work is really different from the work for Dirichlet condition. In fact this result is published in a credible journal. The main work of this thesis will begin in chapter three and will end in chapter five. In these chapters we will investigate a necessary condition for existence of solution for a calculus of variation problem...
Mechanism of 1,12-Dicarba-closo-dodecaborane Mobility on Gold Substrate as a Nanocar Wheel
, Article Journal of Physical Chemistry C ; Volume 120, Issue 26 , 2016 , Pages 14048-14058 ; 19327447 (ISSN) ; Nejat Pishkenari, H ; Meghdari, A ; Sharif University of Technology
American Chemical Society
2016
Abstract
We studied the mobility of p-carborane on a gold surface by analyzing the potential energy surfaces (PES) and simulating the motion of p-carborane using the classical molecular dynamics (MD) method. In the first section, we calculated the PES of p-carborane molecules on a gold surface during pure translation (sliding) and pure rotation independently and then employed this PES to predict the probable motion of p-carborane. These calculations were performed in several major orientations during sliding as well as different fixed positions during rotational movements to enable us to find the p-carborane motion threshold on a gold surface. In the second section, we use classical MD in isothermal...
Sequential Competitive Facility Location In Continuous Geometric Space
, M.Sc. Thesis Sharif University of Technology ; Abam, Mohammad Ali (Supervisor)
Abstract
Abstract The problem of competetive facility location can be defined as follows: There are a number of customers in the form of points in space, and two players arrange a number of facilities in the form of points in space, given some limitations, respectively. Each customer’s connection to each facility has a cost for the customer and an advantage for the facility, and each customer wants to be connected to at most one of the facilities which has the lowest cost for him. The goal is to find the strategy of placing the facilities and determining the cost which the facility receives from the customer, in such a way that the player’s profit is maximised.In this thesis, we first sought to...
A closer look at the motion of p-carborane on gold surface
, Article 1st International Conference on Manipulation, Automation and Robotics at Small Scales, 18 July 2016 through 21 July 2016 ; 2016 ; 9781509015108 (ISBN) ; Nejat Pishkenari, H ; Meghdari, A ; Sharif University of Technology
Institute of Electrical and Electronics Engineers Inc
2016
Abstract
In recent years, nanocars with p-carborane wheels have been a subject of interest as an artificial molecular machine. Researchers aim to discover compositions that are easier to fabricate, efficient and are more stable on the surface. The p-carborane molecule has all these key elements, making it a viable choice as a nanocar wheel, and the mobility of a nanocar is heavily influenced by the motion of its wheels. In this research, we use classical Molecular Dynamics (MD) in isothermal conditions to specify the regime of motion of p-carborane at different temperatures. We find that by raising the temperature, three different regimes of motion may be observed: jumps to adjacent cells, long...
How chassis structure and substrate crystalline direction affect the mobility of thermally driven p-carborane-wheeled nanocars
, Article Journal of Physical Chemistry C ; 2019 ; 19327447 (ISSN) ; Pishkenari, H. N ; Meghdari, A ; Sharif University of Technology
American Chemical Society
2019
Abstract
In recent years, various nanocars have been synthesized in order to provide controlled mechanical function, transport other nanoparticles, or enable bottom-up assembly capability. There have even been racing competitions among well-known nanocars in which the wheels play an influential role. In this paper, the motion of thermally driven nanocars equipped with p-carborane wheels on Au(111) and Au(001) substrates is investigated. For the sake of comparison, classical all-Atom molecular dynamics (MD) and rigid-body MD (RBMD) have been used to study the motion threshold as well as to analyze the effect of temperature, substrate crystalline direction, and chassis shape on the diffusive motion of...
How chassis structure and substrate crystalline direction affect the mobility of thermally driven p-carborane-wheeled nanocars
, Article Journal of Physical Chemistry C ; Volume 123, Issue 8 , 2019 , Pages 4805-4824 ; 19327447 (ISSN) ; Nejat Pishkenari, H ; Meghdari, A ; Sharif University of Technology
American Chemical Society
2019
Abstract
In recent years, various nanocars have been synthesized in order to provide controlled mechanical function, transport other nanoparticles, or enable bottom-up assembly capability. There have even been racing competitions among well-known nanocars in which the wheels play an influential role. In this paper, the motion of thermally driven nanocars equipped with p-carborane wheels on Au(111) and Au(001) substrates is investigated. For the sake of comparison, classical all-atom molecular dynamics (MD) and rigid-body MD (RBMD) have been used to study the motion threshold as well as to analyze the effect of temperature, substrate crystalline direction, and chassis shape on the diffusive motion of...
Centrality-based group formation in group recommender systems
, Article 26th International World Wide Web Conference, WWW 2017 Companion, 3 April 2017 through 7 April 2017 ; 2019 , Pages 1187-1196 ; 9781450349147 (ISBN) ; Khalili, S ; Elahe Ghalebi, K ; Grosu, R ; Mojde Morshedi, S ; Movaghar, A ; Sharif University of Technology
International World Wide Web Conferences Steering Committee
2019
Abstract
Recommender Systems have become an attractive field within the recent decade because they facilitate users' selection process within limited time. Conventional recommender systems have proposed numerous methods focusing on recommendations to individual users. Recently, due to a significant increase in the number of users, studies in this field have shifted to properly identify groups of people with similar preferences and provide a list of recommendations for each group. Offering a recommendations list to each individual requires significant computational cost and it is therefore often not efficient. So far, most of the studies impose four restrictive assumptions: (1) limited number of...
Evaluating traffic safety policies for developing countries based on equity considerations
, Article Journal of Transportation Safety and Security ; Volume 9 , 2017 , Pages 178-203 ; 19439962 (ISSN) ; Isaai, M. T ; Lavasani, M ; Thill, J. C ; Sharif University of Technology
2017
Abstract
Traffic safety policies are still conventionally ranked on financial and environmental criteria in developing countries, yet the equity concept can be advantageously used as an integral part of the process of traffic safety policy making. Equity in transportation is defined as how appropriately and equally the impacts of transportation are distributed among different types of users. The main contribution of this research is to introduce traffic safety equity in transportation policy making. The authors advocate for a modeling framework that considers traffic safety equity as a focal point. The analytical network process overcomes the drawbacks of data intensive models that are so difficult...
A multi-dimensional packet classifier for NP-based firewalls
, Article Proceedings - 2004 International Symposium on Applications and the Internet (Saint 2004), Tokyo, 26 January 2004 through 30 January 2004 ; 2004 , Pages 250-254 ; 0769520685 (ISBN); 9780769520681 (ISBN) ; Rabiee, H. R ; Foroutan, A ; Lavasani, M ; Sharif University of Technology
2004
Abstract
In this paper we present design and implementation of a new multi dimensional packet classifier engine using network processor technology. Our classification algorithm is fast and is based on hierarchical trie search for multi-dimensional rules. Moreover, we propose a technique to optimize the memory usage of our classifier. We have used the Intel® IXP1200 network processor pipeline architecture for implementation of the classifier. The final system is targeted to be a fast firewall packet filtering engine that uses the filtering policies as its classification rules. Our experimental result shows that the packet classification throughput results for various distribution of packet sizes, is...
Investigate Laboratory Production of Hydroxyurea
, M.Sc. Thesis Sharif University of Technology ; Bastani, Dariush (Supervisor) ; Seifkordi, Ali Akbar (Supervisor) ; Zegordi, Elahe (Co-Advisor)
Abstract
Hydroxyurea is an anticancer drug that is commonly used to treat chronic myeloid leukemia (white blood cell cancer in bone marrow), polycythemia vera (red blood cell cancer), sickle cell anemia, solid tumors, and in particular leukemia. In this research, in addition to analyzing all available methods for synthesis of hydroxyurea, the most economical method for synthesis of hydroxyurea which is Hantzsch method was chosen; then we synthesized hydroxyurea crystals using a precipitation or crystallization process. To do so, two hydroxylamine hydrochloride and potassium cyanate reactants have been used in the semi batch reactor. Since the reaction efficiency and purity of the synthesized...
A rapid and sensitive HPLC-fluorescence method for determination of mirtazapine and its two major metabolites in human plasma
, Article Iranian Journal of Pharmaceutical Research ; Volume 13, Issue 3 , Summer 2014 , Pages 853-862 ; Giorgi, M ; Sheikholeslami, B ; Hedayati, M ; Rouini, M. R ; Sharif University of Technology
Summer 2014
Abstract
A rapid and sensitive HPLC method has been developed for the quantification of mirtazapine (MRZ), a noradrenergic and specific serotonergic inhibitor antidepressant (NaSSA) and its two major metabolites N-desmethyl mirtazapine (NDM) and 8-hydroxymirtazapine (8-OHM) in human plasma. The separation was achieved using Chromolith C18 column and a mobile phase of acetonitrile: phosphate buffer (pH = 3, 20:80, v/v) in isocratic mode at a flow rate of 2 mL/min. A fluorescence detector was set at 290 and 350 nm for excitation and emission, respectively. Zolpidem was used as the internal standard. Liquid-liquid extraction was applied for sample clean up. All analytes were eluted in less than 5...
Generating a Pulsatile Pulmonary Flow after Fontan Operation by Means of Computational Fluid Dynamics (CFD)
, M.Sc. Thesis Sharif University of Technology ; Saidi, Mohamad Said (Supervisor) ; Firoozabadi, Bahar (Supervisor) ; Navaee Shirazei, Mohammad Ali (Co-Advisor)
Abstract
This study considers blood flow in total cavopulmonary connection (TCPC) morphology, which is created in Fontan surgical procedure in patients with single ventricle heart disease. Ordinary process of TCPC operation reduces the pulmonary blood flow pulsatility; because of right ventricle being bypassed. This phenomenon causes a lot of side effects for patients. A cardiac surgeon has suggested that keeping main pulmonary artery (MPA) partially open, would increase pulmonary flow pulsations. MPA gets closed in ordinary TCPC operation. The purpose of current study is to verify the effects of keeping MPA partially open on pulmonary flow pulsations, by means of computational fluid dynamics (CFD)....
Modeling and Motion Analysis of a Light-driven Nano Mobile Robot
, Ph.D. Dissertation Sharif University of Technology ; Meghdari, Ali (Supervisor) ; Nejat Pishkenari, Hossein (Supervisor)
Abstract
In recent years, various nanocars have been synthesized to provide controlled mechanical function, transport other nanoparticles, or enable bottom-up assembly capability. In this research, using molecular dynamics and quantum mechanics, the motion of nanoworm on the gold substrate was investigated. The incorporation of the azobenzene chromophore at the middle of the chassis allows for the potential motion of nanoworm by light as a source of external stimuli. The creators claimed that nanoworm could achieve controlled wormlike movement on gold substrate, which should be validated as the purpose of this research. In the first section, the movement of the p-carborane wheel on the gold surface...