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cloning
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Temperature effects on quantum cloning of states and entanglement
, Article Physics Letters, Section A: General, Atomic and Solid State Physics ; Volume 373, Issue 8-9 , 2009 , Pages 821-825 ; 03759601 (ISSN) ; Rezakhani, A. T ; Sharif University of Technology
2009
Abstract
Performances of the symmetric universal and phase-covariant cloning transformations and entanglement cloners - qubit case - are investigated when the initial state of the hardware or the original state to be cloned is weakly coupled to a thermal environment. Different behaviors of each of these transformations are analyzed and contrasted with the ideal cases. © 2009 Elsevier B.V. All rights reserved
Cross-project code clones in GitHub
, Article Empirical Software Engineering ; 2018 ; 13823256 (ISSN) ; Ray, B ; Keshani, M ; Zavosht, M. S ; Heydarnoori, A ; Filkov, V ; Sharif University of Technology
Springer New York LLC
2018
Abstract
Code reuse has well-known benefits on code quality, coding efficiency, and maintenance. Open Source Software (OSS) programmers gladly share their own code and they happily reuse others’. Social programming platforms like GitHub have normalized code foraging via their common platforms, enabling code search and reuse across different projects. Removing project borders may facilitate more efficient code foraging, and consequently faster programming. But looking for code across projects takes longer and, once found, may be more challenging to tailor to one’s needs. Learning how much code reuse goes on across projects, and identifying emerging patterns in past cross-project search behavior may...
Cross-project code clones in GitHub
, Article Empirical Software Engineering ; Volume 24, Issue 3 , 2019 , Pages 1538-1573 ; 13823256 (ISSN) ; Ray, B ; Keshani, M ; Soleimani Zavosht, M ; Heydarnoori, A ; Filkov, V ; Sharif University of Technology
Springer New York LLC
2019
Abstract
Code reuse has well-known benefits on code quality, coding efficiency, and maintenance. Open Source Software (OSS) programmers gladly share their own code and they happily reuse others’. Social programming platforms like GitHub have normalized code foraging via their common platforms, enabling code search and reuse across different projects. Removing project borders may facilitate more efficient code foraging, and consequently faster programming. But looking for code across projects takes longer and, once found, may be more challenging to tailor to one’s needs. Learning how much code reuse goes on across projects, and identifying emerging patterns in past cross-project search behavior may...
Separability in asymmetric phase-covariant cloning
, Article Physics Letters, Section A: General, Atomic and Solid State Physics ; Volume 336, Issue 4-5 , 2005 , Pages 278-289 ; 03759601 (ISSN) ; Siadatnejad, S ; Ghaderi, A. H ; Sharif University of Technology
Elsevier
2005
Abstract
Here, asymmetric phase-covariant quantum cloning machines are defined and trade-off between qualities of their outputs and its impact on entanglement properties of the outputs are studies. In addition, optimal families among these cloners are introduced and also their entanglement properties are investigated. An explicit proof of optimality is presented for the case of qubits, which is based on the no-signaling condition. Our optimality proof can also be used to derive an upper bound on trade-off relations for a more general class of optimal cloners which clone states on a specific orbit of the Bloch sphere. It is shown that the optimal cloners of the equatorial states, as in the case of...
Construction of New Recombinant Plasmid Carrying Bone Morphogenetic Protein Gene
,
M.Sc. Thesis
Sharif University of Technology
;
Yaghmaei, Soheyla
(Supervisor)
;
Mashayekhan, Shohreh
(Supervisor)
;
Khoshzaban, Ahad
(Co-Advisor)
Abstract
The purpose of this reaserch is to create a context in production of Bone Morphogenetic Protein-2 with more effective properties in Bone healing in Iran. Because of demand Of this protein in medical field it could cause an evalution in bone healing. The first section of this reaserch was the Construction of new recombinant plasmid carrying bone morphogenetic protein gene that was title of this thesis. First total RNA was extracted from ostosarcoma cancer cell line MG-63 followed by cDNA synthesis.For amplifying of the mature region of protein a pair of primer with tow restriction site was designed. After Success in PCR and obtaining PCR product with size of 343bp it transferd to vector...
An Empirical Study on the Use of Cross-Project Clones
,
M.Sc. Thesis
Sharif University of Technology
;
Heydar Noori, Abbas
(Supervisor)
Abstract
Code clones are similar code snippets in software projects. Code clones, along with their disadvantages and applications, have long been studied by researchers. In recent years, due to the popularity of open source software, using software development ecosystems such as GitHub have increased dramatically. These ecosystems allow their users to perform high-quality software development without the need for physical presence. A number of previous studies have shown that software is being developed or modified repeatedly and many defects in software projects are duplicates. Finding these recurring codes and defects may be useful for software developers. Given that finding and fixing software...
Synthesis and Structural Activity Relationship (SAR) of Novel Pyridazine-based Inhibitors for Inhibition of Amyloid Fibril Formation, and Biosynthesis and Optimization of L-AsparaginaseII Enzyme for Hydrolysis of Non-Native Substrate
, M.Sc. Thesis Sharif University of Technology ; Kalhor, Hamid Reza (Supervisor)
Abstract
After proteins, one of the important biological macromolecules, are synthesized by ribosomes,they automatically reach their own special 3-D structure. This native structur or better known as folded state is what determines the function of a protein. In some situations, the proteins become misfolded leading to its lack of biological function through aggregation or fibril formation known as "amyloid". The amyloid fibrils have been shown to be a causative factor in nerve decay such as Alzheimer's. Therefore, inhibition of amyloid formation using different approaches such as synthetic organic and natural compounds has, recently, been under spotlight. A pyridazine basedcompound (RS-0406) has...
Superposition of Orthogonal States and No-go Theorems in Quantum Mechanics
, M.Sc. Thesis Sharif University of Technology ; Karimipour, Vahid (Supervisor)
Abstract
Quantum mechanics, because of its special structure, on one hand offers us possibilities for doing un-classical tasks and on the other hand imposes limitations on performing some quantum tasks. We know these limitations as no-go theorems in Quantum mechanics. Studying these no-go theorems and properties which can be used as Quantum resources, has a wide variety of applications in Quantum information and Quantum computation, also they can lead us to a deeper understanding of the Quantum mechanics theory.One of these non-classical properties is Superposition. Quantum superposition is both a source for other Quantum properties like entanglement, and a Quantum resource for Quantum tasks. But...
Cloning and Production of the Flavin Reductase Enzyme in Order to Perform Organic Reaction and Synthesis of Cation Exchange Column for Protein Purification
, M.Sc. Thesis Sharif University of Technology ; Kalhor, Hamid Reza (Supervisor)
Abstract
The reductase enzymes perform an important function in the cell. These enzymes are usually coupled with other enzymes and participate in reactions such as halogenation, reduction of alkene, and carboxylic acids. These reactions are carried out by reproducing cofactors such as FADH2 and NAD+; however, there is no evidence that this enzyme alone can perform an organic reaction. In this work, we aim to examine whether recombinant flavin reductase can carry out organic reactions. In order to amplify the flavin reductase enzyme gene from the E. coli genome by PCR (Polymerase Chain Reaction) method, two synthetic primers were designed; The forward primer of the gene contained a cleavage site for...
Bibliography of works done on CAPTCHA
, Article Proceedings of 2008 3rd International Conference on Intelligent System and Knowledge Engineering, ISKE 2008, Xiamen, 17 November 2008 through 19 November 2008 ; 2008 , Pages 205-210 ; 9781424421978 (ISBN) ; Shirali-Shahreza, M. H ; Sharif University of Technology
2008
Abstract
Nowadays, a great amount of information is circulated through the Internet. Some of them exclusively belongs to a special group of users and requires protection and safeguarding against unauthorized access. To this end, a category of systems called HIP (Human Interactive Proof) have been introduced to distinguish between various groups of users. CAPTCHA (Completely Automatic Public Turing Test to Tell Computer and Human Apart) methods are one of the important branches of HIP systems which are used to distinguish between human users and computer programs automatically. These methods are based on Artificial Intelligence (AI) topics. The goal of these systems is to ask questions which human...
Producing functional recombinant human keratinocyte growth factor in Pichia pastoris and investigating its protective role against irradiation
, Article Enzyme and Microbial Technology ; Volume 111 , April , 2018 , Pages 12-20 ; 01410229 (ISSN) ; Kalhor, H. R ; Mowla, S. J ; Sharif University of Technology
Elsevier Inc
2018
Abstract
Keratinocyte Growth Factor (KGF) is a paracrine-acting, epithelial mitogen that plays a prominent role in the regeneration of damaged epithelial tissues. In spite of different attempts to produce recombinant human KGF in many organisms, including bacteria, mammalian cells, plant cells and insect cells; production of recombinant form suffers from lower yields and recovery relative to other recombinant proteins of similar size and properties. Due to many advantages of Pichia pastoris expression systems for producing industrial enzymes and pharmaceutical proteins, in this study P. pastoris was chosen as a host for KGF expression. For preparing human KGF coding sequence, MCF-7 cell line was...
Expression of functional recombinant human tissue transglutaminase (TG2) using the bac-to-bac baculovirus expression system
, Article Advanced Pharmaceutical Bulletin ; Volume 6, Issue 1 , 2016 , Pages 49-56 ; 22285881 (ISSN) ; Azari, S ; Kalhor, H. R ; Sharif University of Technology
Tabriz University of Medical Sciences
Abstract
Tissue transglutaminase (TG2) is a unique multifunctional enzyme. The enzyme possesses enzymatic activities such as transamidation/crosslinking and non-enzymatic functions such as cell migration and signal transduction. TG2 has been shown to be involved in molecular mechanisms of cancers and several neurodegenerative diseases such as Alzheimer's disease. The present study aimed at cloning and expression of full length human TG2 in Bac-to-Bac baculovirus expression system and evaluation of its activity. Methods: pFastBac HTA donor vector containing coding sequence of human TG2 was constructed. The construct was transformed to DH10Bac for generating recombinant bacmid. The verified bacmid was...
Pyromellitic dianhydride crosslinked cyclodextrin nanosponges for curcumin controlled release; formulation, physicochemical characterization and cytotoxicity investigations
, Article Journal of Microencapsulation ; Volume 36, Issue 8 , 2019 , Pages 715-727 ; 02652048 (ISSN) ; Zarrabi, A ; Caldera, F ; Trotta, F ; Ghias, N ; Sharif University of Technology
Taylor and Francis Ltd
2019
Abstract
Aim: In this study, a nanosponge structure was synthesised with capability of encapsulating curcumin as a model polyphenolic compound and one of the herbal remedies that have widely been considered due to its ability to treat cancer. Methods: FTIR, DSC and XRD techniques were performed to confirm the formation of the inclusion complex of the nanosponge-drug. Results: DSC and XRD patterns showed an increasing stability and a decreasing crystallinity of curcumin after formation of inclusion complex. Encapsulation efficiency was 98% (w/w) and a significant increase was observed in loading capacity (184% w/w). The results of cytotoxicity assessments demonstrated no cell toxicity on the healthy...
Design and fabrication of a novel microfluidic system for enrichment of circulating tumor cells with the assistance of computer simulations
, Article Avicenna Journal of Medical Biotechnology ; Volume 11, Issue 4 , 2019 , Pages 277-284 ; 20082835 (ISSN) ; Vossoughi, M ; Alemzadeh, I ; Sharif University of Technology
Avicenna Research Institute
2019
Abstract
Background: Cancer is the first cause of death in developed countries. The heterogeneous nature of cancer requires patient-specified treatment plans. One reliable approach is collecting Circulating Tumour Cells (CTCs) and using them for prognosis and drug response assessment purposes. CTCs are rare and their separation from normal cell requires high-accuracy methods. Methods: A microfluidic cell capture device to separate CTCs from peripheral blood is presented in this study. The CTC separation device applies hydrodynamic forces to categorize cells according to their sizes. The proposed device is designed and evaluated by numerical simulations and validated experimentally. The simulation...
FLMAP: A fast lightweight mutual authentication protocol for RFID systems
, Article 2008 16th International Conference on Networks, ICON 2008, New Delhi, 12 December 2008 through 14 December 2008 ; February , 2008 ; 9781424438051 (ISBN) ; Jalili, R ; Sharif University of Technology
2008
Abstract
Numerous authentication protocols for RFID systems were proposed as attempt to prevent unauthorized tracking and monitoring, impersonation or cloning, and information leakage. Many of such attempts cannot establish essential requirements that one robust authentication protocol must guarantee. In this paper, we propose a rapid mutual authentication protocol, called FLMAP, that overcomes all the drawbacks of previously proposed protocols. Our protocol has three passes and it does not use any cryptographic primitives such as hash functions and encryption algorithms; it is very fast and efficient. Significant characteristics of the protocol are forward security, tag anonymity, location privacy,...
On the power of power analysis in the real world: A complete break of the KeeLoq code hopping scheme
, Article 28th Annual International Cryptology Conference, CRYPTO 2008, Santa Barbara, CA, 17 August 2008 through 21 August 2008 ; Volume 5157 LNCS , 2008 , Pages 203-220 ; 03029743 (ISSN) ; 3540851739 (ISBN); 9783540851738 (ISBN) ; Kasper, T ; Moradi, A ; Paar, C ; Salmasizadeh, M ; Manzuri Shalmani, M. T ; Sharif University of Technology
2008
Abstract
KeeLoq remote keyless entry systems are widely used for access control purposes such as garage openers or car door systems. We present the first successful differential power analysis attacks on numerous commercially available products employing KeeLoq code hopping. Our new techniques combine side-channel cryptanalysis with specific properties of the KeeLoq algorithm. They allow for efficiently revealing both the secret key of a remote transmitter and the manufacturer key stored in a receiver. As a result, a remote control can be cloned from only ten power traces, allowing for a practical key recovery in few minutes. After extracting the manufacturer key once, with similar techniques, we...
Conifer: clonal tree inference for tumor heterogeneity with single-cell and bulk sequencing data
, Article BMC Bioinformatics ; Volume 22, Issue 1 , 2021 ; 14712105 (ISSN) ; Goliaei, S ; Foroughmand Araabi, M. H ; Shariatpanahi, P ; Goliaei, B ; Sharif University of Technology
BioMed Central Ltd
2021
Abstract
Background: Genetic heterogeneity of a cancer tumor that develops during clonal evolution is one of the reasons for cancer treatment failure, by increasing the chance of drug resistance. Clones are cell populations with different genotypes, resulting from differences in somatic mutations that occur and accumulate during cancer development. An appropriate approach for identifying clones is determining the variant allele frequency of mutations that occurred in the tumor. Although bulk sequencing data can be used to provide that information, the frequencies are not informative enough for identifying different clones with the same prevalence and their evolutionary relationships. On the other...
Tunable surface plasmon resonance–based remote actuation of bimetallic core-shell nanoparticle-coated Stimuli responsive polymer for switchable chemo-photothermal synergistic cancer therapy
, Article Journal of Pharmaceutical Sciences ; Volume 107, Issue 10 , 2018 , Pages 2618-2627 ; 00223549 (ISSN) ; Sadighi Bonabi, R ; Pourghazi, K ; Hadilou, N ; Sharif University of Technology
Abstract
New dual light/temperature-responsive nanocarriers were synthesized using bimetallic plasmonic Au-Ag and Ag-Au nanoparticles (NPs) as cores of vehicles which subsequently functionalized with an upper critical solubility temperature–based poly acrylamide-co-acrylonitrile using reversible addition-fragmentation chain transfer for spatiotemporally controlled chemo-photothermal synergistic cancer therapy. The bimetallic cores were assigned to sense wavelengths close to the localized surface plasmon resonance of monometallic NP shell to produce heat which not only can increase the surrounding temperature over the upper critical solubility temperature of polymer to open its valves and promote drug...
Modification of bacterial cellulose/keratin nanofibrous mats by a tragacanth gum-conjugated hydrogel for wound healing
, Article International Journal of Biological Macromolecules ; Volume 134 , 2019 , Pages 280-289 ; 01418130 (ISSN) ; Tamjid, E ; Eslahi, N ; Simchi, A ; Sharif University of Technology
Elsevier B.V
2019
Abstract
To enhance physicomechanical properties and bioactivity of fibrous membranes for wound dressing and tissue engineering applications, novel composite scaffolds consisting of fibrous mats and thermosensitive hydrogel particles were prepared by concurrent electrospinning and electrospraying technique. The composite scaffolds were composed of keratin/bacterial cellulose fibers (150 ± 43 nm) which are hybridized with hydrogel particles (500 nm to 2 μm) based on nonionic triblock copolymers conjugated with Tragacanth gum (TG). FTIR and H-NMR studies indicated ester reactions between carboxylated copolymers and TG through carbodiimide crosslinker chemistry. The hydrogel particles were uniformly...
Alginate-based multifunctional films incorporated with sulfur quantum dots for active packaging applications
, Article Colloids and Surfaces B: Biointerfaces ; Volume 215 , 2022 ; 09277765 (ISSN) ; Priyadarshi, R ; Rhim, J. W ; Lotfali, E ; Bagheri, R ; Pircheraghi, G ; Sharif University of Technology
Elsevier B.V
2022
Abstract
Sulfur quantum dots (SQDs) were fabricated using a facile hydrothermal method and used for the preparation of functional food packaging film and compared the properties with other sulfur-based fillers like elemental sulfur (ES) and sulfur nanoparticles (SNP). The SQDs have an average size of 5.3 nm and were very stable in aqueous suspension. Unlike other sulfur-based fillers, the SQD showed high antioxidant, antibacterial and antifungal activity, but no cytotoxicity was found for L929 mouse fibroblasts even after long-term exposure of 48 h. When sulfur-based fillers were added to the alginate film, SQD was more evenly dispersed in the polymer matrix than SNP and ES. The addition of SQD to...