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nucleic-acids
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Self-assembly of tryptophan-capped gold nanoparticles onto DNA network template
, Article Journal of Dispersion Science and Technology ; Volume 30, Issue 2 , 2009 , Pages 254-258 ; 01932691 (ISSN) ; Vosoughi, M ; Alemsadeh, I ; Sharif University of Technology
2009
Abstract
In this study, a simple route to the formation of DNA-gold complex has been reported, using immobilized DNA as a template. The nanoporous gold films have been prepared by the electrostatic self assembly of gold nanoparticles capped with tryptophan. Tryptophan would improve surface properties of gold nanoparticles for strongly attaching to DNA. Fourier transform infrared spectroscopy confirmed that gold nanoparticles have been capped by tryptophan. Also measured zeta potential shows that there are positive charges on the surface of gold nanoparticles. Investigations by atomic force microscopy substantially confirm that tryptophan-capped gold nanoparticles can be bonded to DNA template...
Fabrication of metal nanowires based on self assembly of tryptophan-capped gold nanoparticle onto DNA network template
, Article International Journal of Nanotechnology ; Volume 6, Issue 10-11 , 2009 , Pages 1041-1049 ; 14757435 (ISSN) ; Vossoughi, M ; Alemzadeh, I ; Sharif University of Technology
2009
Abstract
In this study, synthesis of conductive metal nanowires by using aligned and immobilised DNA strand on solid substrate is reported. The nanoporous gold film was prepared by electrostatic self assembly of gold nanoparticles capped with tryptophan. Tryptophan would improve surface properties of gold nanoparticles for strongly attaching to DNA. Fourier transform infrared (FTIR) spectroscopy confirmed that gold nanoparticles have been capped by tryptophan. Also measured zeta potential shows that there are positive charges on the surface of gold nanoparticles. Investigations by AFM observati on substantially confirm that tryptophan-capped gold nanoparticles can be bonded to DNA template...
Superparamagnetic iron oxide nanoparticles with rigid cross-linked polyethylene glycol fumarate coating for application in imaging and drug delivery
, Article Journal of Physical Chemistry C ; Volume 113, Issue 19 , 2009 , Pages 8124-8131 ; 19327447 (ISSN) ; Simchi, A ; Imani, M ; Hafeli, U. O ; Sharif University of Technology
2009
Abstract
Superparamagnetic iron oxide nanoparticles with proper surface coatings are increasingly being evaluated for clinical applications such as hyperthermia, drug delivery, magnetic resonance imaging, transfection, and cell/protein separation. To enhance the applicability of magnetic nanoparticles, two main problems must be overcome. First, as the drug coats the particle surface, a significant portion of it is quickly released upon injection (burst effect). Therefore, only small amounts of the drug reach the specific site after, for example, magnetic drug targeting. Second, once the surface-derivatized nanoparticles are inside the cells, the coating is likely digested, leaving the bare particles...
Ratiometric fluorescent nanoprobes for visual detection: Design principles and recent advances - A review
, Article Analytica Chimica Acta ; Volume 1079 , 2019 , Pages 30-58 ; 00032670 (ISSN) ; Ghasemi, F ; Abbasi Moayed, S ; Shahrajabian, M ; Fahimi Kashani, N ; Jafarinejad, S ; Farahmand Nejad, M. A ; Hormozi Nezhad, M. R ; Sharif University of Technology
Elsevier B.V
2019
Abstract
Signal generation techniques for visual detection of analytes have received a great deal of attention in various sensing fields. These approaches are considered to be advantageous when instrumentation cannot be employed, such as for on-site assays, point-of-care tests, and he althcare diagnostics in resource-constrained areas. Amongst various visual detection approaches explored for non-invasive quantitative measurements, ratiometric fluorescence sensing has received particular attention as a potential method to overcome the limitations of intensity-based probes. This technique relies on changes in the intensity of two or more emission bands (induced by an analyte), resulting in an effective...
Laboratory detection methods for the human coronaviruses
, Article European Journal of Clinical Microbiology and Infectious Diseases ; Volume 40, Issue 2 , 2021 , Pages 225-246 ; 09349723 (ISSN) ; Dowlatshahi, S ; Abdekhodaie, M. J ; Sharif University of Technology
Springer Science and Business Media Deutschland GmbH
2021
Abstract
Coronaviruses are a group of envelop viruses which lead to diseases in birds and mammals as well as human. Seven coronaviruses have been discovered in humans that can cause mild to lethal respiratory tract infections. HCoV-229E, HCoV-OC43, HCoV-NL63, and HCoV-HKU1 are the low-risk members of this family and the reason for some common colds. Besides, SARS-CoV, MERS-CoV, and newly identified SARS-CoV-2, which is also known as 2019-nCoV, are the more dangerous viruses. Due to the rapid spread of this novel coronavirus and its related disease, COVID-19, a reliable, simple, fast, and low-cost detection method is necessary for patient diagnosis and tracking worldwide. Human coronaviruses detection...
DFT study of the interaction of thymine with Cu+ and Zn 2+
, Article Scientia Iranica ; Volume 16, Issue 2 C , 2009 , Pages 75-80 ; 10263098 (ISSN) ; Fattahi, A ; Sharif University of Technology
2009
Abstract
Interaction of the DNA thymine base with Cu+ and Zn3+ was studied to explore: a) The metal binding energy (MIA) of thymine with Cu+ and Zn2+ and b) The possible correlation between charge transfer and MIAs. The gas-phase Cu+ and Zn2+ affinities of thymine, as well as the Mulliken charges, on the complexed metal cations were both determined at the same computational level, including the density functional level and employing the hybrid B3LYP exchange correlation potential in connection with the 6-311++G (d,p) basis set. All the molecular complexes were obtained by interaction between the most stable tautomer of thymine and two transition mono and divalent (Cu+, Zn2+) metal ions. To probe all...
Cytotoxicity of uncoated and polyvinyl alcohol coated superparamagnetic iron oxide nanoparticles
, Article Journal of Physical Chemistry C ; Volume 113, Issue 22 , 2009 , Pages 9573-9580 ; 19327447 (ISSN) ; Simchi, A ; Imani, M ; Sharif University of Technology
2009
Abstract
Superparamagnetic iron oxide nanoparticles (SPION) are being increasingly used in various biomedical applications such as hyperthermia, cell and protein separation, enhancing resolution of magnetic resonance imaging, and drug delivery. However, the toxicity data for SPION are limited. In this study, uncoated and single polyvinyl alcohol coated SPION with high chemical reactivity (due to the bigger surface area) were synthesized using a coprecipitation method. Cytotoxicity of these magnetic nanoparticles and their ability to cause arrest in cell life-cycles was investigated. Interaction of these nanoparticles with adhesive mouse fibroblast cell line (L929) was probed using MTT assay. High...
Solving MEC model of haplotype reconstruction using information fusion, single greedy and parallel clustering approaches
, Article 6th IEEE/ACS International Conference on Computer Systems and Applications, AICCSA 2008, Doha, 31 March 2008 through 4 April 2008 ; 2008 , Pages 15-19 ; 9781424419685 (ISBN) ; Moeinzadeh, M. H ; Sharifian-R, S ; Najafi-A, A ; Ramezani, A ; Habibi, J ; Mohammadzadeh, J ; Sharif University of Technology
2008
Abstract
Haplotype information has become increasingly important in analyzing fine-scale molecular genetics data, Due to the mutated form in human genome; SNPs (Single Nucleotide Polymorphism) are responsible for some genetic diseases. As a consequence, obtaining all SNPs from human populations is one of the primary goals of studies in human genomics. In this paper, a data fusion method based on multiple parallel classifiers for reconstruction of haplotypes from a given sample Single Nucleotide Polymorphism (SNP) is proposed. First, we design a single greedy algorithm for solving haplotype reconstructions. [2] is used as an efficient approach to be combined with first classification method. The...
Solving haplotype reconstruction problem in MEC model with hybrid information fusion
, Article EMS 2008, European Modelling Symposium, 2nd UKSim European Symposium on Computer Modelling and Simulation, Liverpool, 8 September 2008 through 10 September 2008 ; 2008 , Pages 214-218 ; 9780769533254 (ISBN) ; Moeinzadeh, M. H ; Habibi, J ; Sharifian-R, S ; Rasooli-V, A ; Najafi-A, A ; Sharif University of Technology
2008
Abstract
Single Nucleotide Polymorphisms (SNPs), a single DNA base varying from one individual to another, are believed to be the most frequent form responsible for genetic differences. Genotype is the conflated information of a pair of haplotypes on homologous chromosomes. Although haplotypes have more information for disease associating than individual SNPs and genotype, it is substantially more difficult to determine haplotypes through experiments. Hence, computational methods which can reduce the cost of determining haplotypes become attractive alternatives. MEC, as a standard model for haplotype reconstruction, is fed by fragments as input to infer the best pair of haplotypes with minimum error...
Characterization of a moderate thermophilic Nocardia species able to grow on polycyclic aromatic hydrocarbons
, Article Letters in Applied Microbiology ; Volume 45, Issue 6 , December , 2007 , Pages 622-628 ; 02668254 (ISSN) ; Vossoughi, M ; Ardestani, S. K ; Sharif University of Technology
2007
Abstract
Aims: Our goal was the characterization of a new moderate thermophilic polycyclic aromatic hydrocarbon (PAH)-utilizing Nocardia strain. Methods and Results: A thermophilic bacterium, strain TSH1, was isolated from a contaminated soil. The macroscopic and microscopic features fit well with the description of Nocardia species. The results of 16S rRNA gene analysis showed 100% match to the type strain of N. otitidiscaviarum DSM 43242T. Strain TSH1 showed the same mycolic acid pattern as the type strain of N. otitidiscaviarum but its fatty acid profile did not permit identification to the species level. The carbon utilization profile of strain TSH1 was different from N. otitidiscaviarum. The...
Green chemistry and coronavirus
, Article Sustainable Chemistry and Pharmacy ; Volume 21 , 2021 ; 23525541 (ISSN) ; Rabiee, N ; Fatahi, Y ; Hooshmand, S. E ; Bagherzadeh, M ; Rabiee, M ; Jajarmi, V ; Dinarvand, R ; Habibzadeh, S ; Saeb, M. R ; Varma, R. S ; Shokouhimehr, M ; Hamblin, M. R ; Sharif University of Technology
Elsevier B.V
2021
Abstract
The novel coronavirus pandemic has rapidly spread around the world since December 2019. Various techniques have been applied in identification of SARS-CoV-2 or COVID-19 infection including computed tomography imaging, whole genome sequencing, and molecular methods such as reverse transcription polymerase chain reaction (RT-PCR). This review article discusses the diagnostic methods currently being deployed for the SARS-CoV-2 identification including optical biosensors and point-of-care diagnostics that are on the horizon. These innovative technologies may provide a more accurate, sensitive and rapid diagnosis of SARS-CoV-2 to manage the present novel coronavirus outbreak, and could be...
Green chemistry and coronavirus
, Article Sustainable Chemistry and Pharmacy ; Volume 21 , 2021 ; 23525541 (ISSN) ; Rabiee, N ; Fatahi, Y ; Hooshmand, S. E ; Bagherzadeh, M ; Rabiee, M ; Jajarmi, V ; Dinarvand, R ; Habibzadeh, S ; Saeb, M. R ; Varma, R.S ; Shokouhimehr, M ; Hamblin, M. R ; Sharif University of Technology
Elsevier B.V
2021
Abstract
The novel coronavirus pandemic has rapidly spread around the world since December 2019. Various techniques have been applied in identification of SARS-CoV-2 or COVID-19 infection including computed tomography imaging, whole genome sequencing, and molecular methods such as reverse transcription polymerase chain reaction (RT-PCR). This review article discusses the diagnostic methods currently being deployed for the SARS-CoV-2 identification including optical biosensors and point-of-care diagnostics that are on the horizon. These innovative technologies may provide a more accurate, sensitive and rapid diagnosis of SARS-CoV-2 to manage the present novel coronavirus outbreak, and could be...
Point-of-use rapid detection of sars-cov-2: Nanotechnology-enabled solutions for the covid-19 pandemic
, Article International Journal of Molecular Sciences ; Volume 21, Issue 14 , 2020 , Pages 1-23 ; Bagherzadeh, M ; Ghasemi, A ; Zare, H ; Ahmadi, S ; Fatahi, Y ; Dinarvand, R ; Rabiee, M ; Ramakrishna, S ; Shokouhimehr, M ; Varma, R. S ; Sharif University of Technology
MDPI AG
2020
Abstract
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) caused the COVID-19 pandemic that has been spreading around the world since December 2019. More than 10 million affected cases and more than half a million deaths have been reported so far, while no vaccine is yet available as a treatment. Considering the global healthcare urgency, several techniques, including whole genome sequencing and computed tomography imaging have been employed for diagnosing infected people. Considerable efforts are also directed at detecting and preventing different modes of community transmission. Among them is the rapid detection of virus presence on different surfaces with which people may come in...