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Optical pattern generator for efficient bio-data encoding in a photonic sequence comparison architecture
, Article PLoS ONE ; Volume 16, Issue 1 January 2021 , 2021 ; 19326203 (ISSN) ; Dijujin, N. H ; Koohi, S ; Sharif University of Technology
Public Library of Science
2021
Abstract
In this study, optical technology is considered as SA issues’ solution with the potential ability to increase the speed, overcome memory-limitation, reduce power consumption, and increase output accuracy. So we examine the effect of bio-data encoding and the creation of input images on the pattern-recognition error-rate at the output of optical Vander-lugt correlator. Moreover, we present a genetic algorithm-based coding approach, named as GAC, to minimize output noises of cross-correlating data. As a case study, we adopt the proposed coding approach within a correlation-based optical architecture for counting k-mers in a DNA string. As verified by the simulations on Salmonella whole-genome,...
Optical pattern generator for efficient bio-data encoding in a photonic sequence comparison architecture
, Article PLoS ONE ; Volume 16, Issue 1 , 2021 ; 19326203 (ISSN) ; Dijujin, N. H ; Koohi, S ; Sharif University of Technology
Public Library of Science
2021
Abstract
In this study, optical technology is considered as SA issues’ solution with the potential ability to increase the speed, overcome memory-limitation, reduce power consumption, and increase output accuracy. So we examine the effect of bio-data encoding and the creation of input images on the pattern-recognition error-rate at the output of optical Vander-lugt correlator. Moreover, we present a genetic algorithm-based coding approach, named as GAC, to minimize output noises of cross-correlating data. As a case study, we adopt the proposed coding approach within a correlation-based optical architecture for counting k-mers in a DNA string. As verified by the simulations on Salmonella whole-genome,...
Electrocatalytic CO2 fixation by regenerating reduced cofactor NADH during calvin cycle using glassy carbon electrode
, Article PLoS ONE ; Volume 15, Issue 9 September , 2020 ; Amiri, S ; Ullah, N ; Younas, M ; Rezakazemi, M ; Sharif University of Technology
Public Library of Science
2020
Abstract
In this study, an enzymatic pathway has been developed to replicate the Calvin Cycle by creating the individual steps of the carbon cycle in a bioreactor. The technology known as “artificial photosynthesis” converts CO2 emissions into a variety of intermediates that serve as precursors to high-value products. CO2, light, water, and electricity were used as feedstock. An electrochemical reactor was also studied for the regeneration of active NADH operating at constant electrode potential. Initially, a batch electrochemical reactor containing 80 mL of 0.2 mM NAD+ in Tris-buffer (pH 7.40) was used to evaluate the electrode material operating at normal temperature and pressure. The results...
A noninvasive urine metabolome panel as potential biomarkers for diagnosis of t cell-mediated renal transplant rejection
, Article OMICS A Journal of Integrative Biology ; Volume 24, Issue 3 , March , 2020 , Pages 140-147 ; Chashmniam, S ; Nafar, M ; Samavat, S ; Rezaie, D ; Dalili, N ; Sharif University of Technology
Mary Ann Liebert Inc
2020
Abstract
Acute T cell-mediated rejection (TCMR)is a major complication after renal transplantation. TCMR diagnosis is very challenging and currently depends on invasive renal biopsy and nonspecific markers such as serum creatinine. A noninvasive metabolomics panel could allow early diagnosis and improved accuracy and specificity. We report, in this study, on urine metabolome changes in renal transplant recipients diagnosed with TCMR, with a view to future metabolomics-based diagnostics in transplant medicine. We performed urine metabolomic analyses in three study groups: (1) 7 kidney transplant recipients with acute TCMR, (2) 15 kidney transplant recipients without rejection but with impaired kidney...
Chemically Modified Electrode Based on Carbon Nanostructures and Metal Nanoparticles: Preparation, Characterization and Application in Determination of the Pharmaceutical and Biological Compounds and Oxygen Reduction at Soft Interfaces Catalyzed by in Situ Generated Reduced Graphene Oxide
, Ph.D. Dissertation Sharif University of Technology ; Shahrokhian, Saeed (Supervisor)
Abstract
In the first part, the preparation of metallic, bi-metallic (alloy or mixtures) and metallic oxide nanoparticles on the substrate of carbon nanostructures (carbon nanotube and graphene based nanosheets) has been performed using chemical and electrochemical procedures. Then, the prepared nanostructures were characterized by electron microscopy, spectroscopy and electrochemical techniques. Finally, the nanofilms have been evaluated for sensing applications as a modifier on the electrode surface for accurate determination of trace amounts of some important pharmaceutical and biological compounds. In the first work, multi-walled carbon nanotubes decorated with Fe3O4 nanoparticles...
Fabrication of a modified electrode based on Fe3 O4 NPs/MWCNT nanocomposite: Application to simultaneous determination of guanine and adenine in DNA
, Article Bioelectrochemistry ; Volume 86 , 2012 , Pages 78-86 ; 15675394 (ISSN) ; Rastgar, S ; Amini, M. K ; Adeli, M ; Sharif University of Technology
Abstract
Multi-walled carbon nanotubes decorated with Fe 3O 4 nanoparticles (Fe 3O 4NPs/MWCNT) were prepared and used to construct a novel biosensor for the simultaneous detection of adenine and guanine. The direct electro-oxidation of adenine and guanine on the modified electrode were investigated by linear sweep voltammetry. The results indicate a remarkable increase in the oxidation peak currents together with negative shift in the oxidation peak potentials for both adenine and guanine, in comparison to the bare glassy carbon electrode (GCE). The surface morphology and nature of the composite film deposited on GCE were characterized by transmission electron microscopy, atomic force microscopy,...