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Total 24 records

    Learning Interpretable Representation of Drugs based on Microscopy Images

    , M.Sc. Thesis Sharif University of Technology Sanian, Mohammad Vali (Author) ; Rohban, Mohammad Hossein (Supervisor)
    Abstract
    In this study, we aim to learn representations from microscopic cell images that effectively capture the features of drugs affecting the cells, allowing us to identify effective drugs for treating a disease. We employ two parallel learning paths using predictive and generative models. Specifically, we have achieved a predictive model on the RxRx19a dataset that, unlike previous models, is interpretable, optimized, and robust to dras- tic changes in drug properties. Additionally, we have developed the first generative model on this dataset, which not only generates high-quality images but also discovers a meaningful latent space. This latent space divides the representation into relevant... 

    Theoretical and Experimental Studies of Interaction of Laser Beam with Particulate Microflows

    , Ph.D. Dissertation Sharif University of Technology Zabetian Targhi, Mohammad (Author) ; Saeedi, Mohammad Hassan (Supervisor) ; Saeedi, Mohammad Saeed ($item.subfieldsMap.e) ; Shafii, Mohammad Behshad ($item.subfieldsMap.e)
    Abstract
    Contactless and nonintrusive methods in particulate manipulation have been considered by many investigations. Particularly the use of these methods in characterization of micro and nano flows is in the focus of interests. Laser usage in the particulate systems has been dramatically increased during the last two decades. Laser can be used either as an illustration or excitation source in these systems. So-called optical tweezers use the laser beam for particle manipulation and characterization based on the hydrodynamic interaction of the laser beam with particles. There are numerous works being conducted in the field of particulate manipulation and characterization using laser beam.Present... 

    Characterization of Microparticle Suspension Using Experimental and Image Processing Methods

    , M.Sc. Thesis Sharif University of Technology Rohani, Ramtin (Author) ; Saeedi, Mohammad Hasan (Supervisor) ; Shafiee, Mohammad Behshad (Co-Advisor)
    Abstract
    Various application of polyethylene material in different industries caused to modern techniques for controlling and measuring specifications of micro-particle suspension. Many industries try to increase stability of suspensions in front of their phase separation.
    Because of the consequences of suspension homogeneity, at first, we measured this property. Then, the stability was tested by three different methods. In the first method, the transmitted laser light was measured to assay the suspensions stability. In the second, number of sediments of particles was counted. Sedimentation velocity of particles was measured directly by using a horizontal microscope as the third method. The... 

    An Image Processing Algorithm for Diagnosis of Cell Samples

    , M.Sc. Thesis Sharif University of Technology Sadr, Ali (Author) ; Jahed, Mehran (Supervisor) ; Salehian, Pirouz (Supervisor)
    Abstract
    Detection of blood diseases is one of the hardest branches of medical science. The human circulatory system mainly consists of three main components namely white blood cells, red blood cells and platelets. Many diseases are diagnosed based on qualitative and quantitative evaluation of these cells, such as cell’s quantity, size, shape and the color of the cells. For example, AIDS and blood cancer cause major changes in components of immune system i.e. white blood cells. Also, some features of red blood cells change in various diseases such as iron deficiency, anemia, thalassemia and other diseases like malaria. Rapid diagnosis and treatment of these diseases has a considerable impact on the... 

    An Approach for Cancer Diagnosis Based on Graph Modeling

    , M.Sc. Thesis Sharif University of Technology Taghizadeh, Ghasem (Author) ; Habibi, Jafar (Supervisor)
    Abstract
    Digital image analysis of histological datasets is a currently expanding field of research. Histological images are inherently complex in nature and contain a wide variety of visual information. Graph-based methods have recently gained immense popularity, as these methods can effectively describe tissue architecture and provide adequate numeric information for subsequent computer-based analysis. Graphs have the ability to represent spatial arrangements and neighborhood relationships of different tissue components, which are essential characteristics observed visually by pathologists during the investigation of specimens. In this thesis, we proposed an automatic approach for classification... 

    Water-based sol-gel nanocrystalline barium titanate: Controlling the crystal structure and phase transformation by Ba:Ti atomic ratio

    , Article Journal of Materials Science ; Volume 44, Issue 18 , 2009 , Pages 4959-4968 ; 00222461 (ISSN) Mohammadi, M. R ; Esmaeili Rad, A ; Fray, D. J ; Sharif University of Technology
    2009
    Abstract
    Highly stable, water-based barium titanate (BaTiO3) sols were developed by a low cost and straightforward sol-gel process. Nanocrystalline barium titanate thin films and powders with various Ba:Ti atomic ratios were produced from the aqueous sols. The prepared sols had a narrow particle size distribution in the range 21-23 nm and they were stable over 5 months. X-ray diffraction pattern revealed that powders contained mixture of hexagonal- or perovskite-BaTiO3 as well as a trace of Ba2Ti 13O22 and Ba4Ti2O27 phases, depending on annealing temperature and Ba:Ti atomic ratio. Highly pure barium titanate with cubic perovskite structure achieved with Ba:Ti = 50:50 atomic ratio at the high... 

    Transportation and Settling Distribution of Microparticles in Low-Reynolds-Number Poiseuille Flow in Microchannel

    , Article Journal of Dispersion Science and Technology ; Volume 37, Issue 4 , 2016 , Pages 582-594 ; 01932691 (ISSN) Razaghi, R ; Saidi, M. H ; Sharif University of Technology
    Taylor and Francis Inc 
    Abstract
    In this article, velocity field and settling distribution of microparticles in a dilute suspension in low-Reynolds-number Poiseuille flow in a microchannel is experimentally investigated using microscopic image analysis. An effective technique is applied to manipulate single-particle tracking in order to determine the controlling parameters on transportation and settling of microparticles in microchannels. The results show that the velocities of dispersed phase are affected by the hydrodynamic properties, and this velocity deviation can be significant when the hydrodynamic coupling between particles and channel walls is considerable. Increasing the Reynolds number would result in decrease in... 

    Thermal conductivity, viscosity, and electrical conductivity of iron oxide with a cloud fractal structure

    , Article Heat and Mass Transfer/Waerme- und Stoffuebertragung ; Volume 53, Issue 4 , 2017 , Pages 1343-1354 ; 09477411 (ISSN) Jamilpanah, P ; Pahlavanzadeh, H ; Kheradmand, A ; Sharif University of Technology
    Springer Verlag  2017
    Abstract
    In the present study, nanoscale iron oxide was synthesized using a hydrothermal method; XRD analysis revealed that all the produced crystals are iron oxide. FESEM microscopic imaging showed that particles are on the scale of nano and their morphology is cloud fractal. To study the laboratory properties of thermal conductivity, viscosity, and electrical conductivity of the nanoparticles, they were dispersed in ethylene glycol-based fluid and the nanofluid was in a two-step synthesis during this process. The experiments were carried out with a weight fraction between 0 and 2 % at temperatures between 25 and 45 °C. According to the results of the experiments, increasing the density of... 

    The effect of brine salinity on water-in-oil emulsion stability through droplet size distribution analysis: A case study

    , Article Journal of Dispersion Science and Technology ; 2017 , Pages 1-13 ; 01932691 (ISSN) Maaref, S ; Ayatollahi, S ; Sharif University of Technology
    Abstract
    Water-in-oil emulsion usually forms during waterflooding in some heavy oil reservoirs. The composition and salinity of the injected water critically affect the w/o emulsion droplet size distribution, which control the emulsion stability and emulsion flow in porous media. The aim of the present work is to assess the effect of different sea water salinities on w/o emulsion stability through microscopic imaging. Therefore, w/o emulsions were prepared with different sea water samples, which were synthesized to resemble Persian Gulf, Mediterranean, Red Sea, and North Sea water samples. The results showed that log-normal distribution function predicts very well the experimental data to track the... 

    The effect of brine salinity on water-in-oil emulsion stability through droplet size distribution analysis: a case study

    , Article Journal of Dispersion Science and Technology ; Volume 39, Issue 5 , 2018 , Pages 721-733 ; 01932691 (ISSN) Maaref, S ; Ayatollahi, S ; Sharif University of Technology
    Taylor and Francis Inc  2018
    Abstract
    Water-in-oil emulsion usually forms during waterflooding in some heavy oil reservoirs. The composition and salinity of the injected water critically affect the w/o emulsion droplet size distribution, which control the emulsion stability and emulsion flow in porous media. The aim of the present work is to assess the effect of different sea water salinities on w/o emulsion stability through microscopic imaging. Therefore, w/o emulsions were prepared with different sea water samples, which were synthesized to resemble Persian Gulf, Mediterranean, Red Sea, and North Sea water samples. The results showed that log-normal distribution function predicts very well the experimental data to track the... 

    Synthesis of highly pure nanocrystalline and mesoporous CaTiO3 by a particulate sol-gel route at the low temperature

    , Article Journal of Sol-Gel Science and Technology ; Volume 68, Issue 2 , 2013 , Pages 324-333 ; 09280707 (ISSN) Mohammadi, M. R ; Fray, D. J ; Sharif University of Technology
    2013
    Abstract
    The low temperature perovskite-type calcium titanate (CaTiO3) thin films and powders with nanocrystalline and mesoporous structure were prepared by a straightforward particulate sol-gel route. The prepared sol had a narrow particle size distribution about 17 nm. X-ray diffraction and Fourier transform infrared spectroscopy revealed that, the synthesized powders had highly pure and crystallized CaTiO3 structure with preferable orientation growth along (1 2 1) direction at 400-800 °C. The activation energy of crystal growth was calculated 5.73 kJ/mol. Furthermore, transmission electron microscope images showed that the average crystallite size of the powders annealed at 400 °C was around 3.5... 

    Separation of microparticles suspended in a minichannel using laser radiation pressure

    , Article Applied Optics ; Volume 52, Issue 20 , 2013 , Pages 4950-4958 ; 1559128X (ISSN) Zabetian, M ; Saidi, M.S ; Shafii, M. B ; Saidi, M. H ; Sharif University of Technology
    Optical Society of American (OSA)  2013
    Abstract
    Optical separation, which is a contactless and accurate technique, has been mostly used to manipulate single particles. This work mainly aims to present an effective technique for optical propulsion and separation of a group of microscopic particles that are suspended in liquids. An experimental study is conducted to assess the effect of radiation pressure of a high-power laser on a dilute dispersion of microparticles in water using microscopic image analysis. Results of separation experiments indicate that the manipulation mechanism is capable of sorting the microscopic particles in two size classes. Compared to common optical separators, this configuration has a benefit of separating many... 

    Optimized kalman filter based on second momentum and triple rectangular for cell tracking on sequential microscopic images

    , Article 22nd Iranian Conference on Biomedical Engineering, 25 November 2015 through 28 November 2015 ; 2015 , Pages 251-256 ; 9781467393515 (ISBN) Khodadadi, V ; Fatemizadeh, E ; Setarehdan, S. K ; Sharif University of Technology
    Institute of Electrical and Electronics Engineers Inc 
    Abstract
    Cell dynamics and motion stages are very important issues in the biological cell investigation in this novel method, we propose a novel method based on Kalman filter and second momentum for tracking cells on Sequential Microscopic Images. In proposed manner at first, we select a cell and cut covering rectangle. in the next step, we predict rectangle center of the cell in Next frame based on a modeling of velocity-acceleration using Kalman filter. The rectangle with triple covering area of previous cell rectangle and predicting center by Kalman filter is considered as a searching area. So, if all objects in the search areas have second momentum error less than threshold, it is selected as a... 

    Mesoporous and nanocrystalline sol-gel derived NiTiO3 at the low temperature: Controlling the structure, size and surface area by Ni:Ti molar ratio

    , Article Solid State Sciences ; Volume 12, Issue 9 , 2010 , Pages 1629-1640 ; 12932558 (ISSN) Mohammadi, M. R ; Fray, D. J ; Sharif University of Technology
    2010
    Abstract
    Nanocrystalline nickel titanate (NiTiO3) thin films and powders with mesoporous structure were produced at the low temperature of 500 °C by a straightforward particulate sol-gel route. The sols were prepared in various Ni:Ti molar ratios. X-ray diffraction and Fourier transform infrared spectroscopy revealed that the powders contained mixtures of the NiTiO 3 and NiO phases, as well as the anatase-TiO2 and the rutile-TiO2 depending on the annealing temperature and Ni:Ti molar ratio. Moreover, it was found that Ni:Ti molar ratio influences the preferable orientation growth of the nickel titanate, being on (202) planes for the nickel dominant powders (Ni:Ti ≥ 75:25) and on (104) planes for the... 

    Low-temperature perovskite-type cadmium titanate thin films derived from a simple particulate sol-gel process

    , Article Acta Materialia ; Volume 57, Issue 4 , 2009 , Pages 1049-1059 ; 13596454 (ISSN) Mohammadi, M. R ; Fray, D. J ; Sharif University of Technology
    2009
    Abstract
    Low-temperature perovskite-type cadmium titanate (CdTiO3) with a nanocrystalline and mesoporous structure was prepared at various Ti:Cd molar ratios by a straightforward particulate sol-gel route. The prepared sols had a narrow particle size distribution, in the range 23-26 nm. X-ray diffraction and Fourier transform infrared spectroscopy revealed that the powders contained a mixture of ilmenite-CdTiO3, perovskite-CdTiO3, anatase and rutile phases, depending on the annealing temperature and the Ti:Cd molar ratio. Perovskite-CdTiO3 was the major type obtained from cadmium-prominent powders at low temperature, whereas ilmenite-CdTiO3 was the major type obtained from titanium-prominent powders... 

    Experimental investigation of drag and lift forces on microparticles in low reynolds number poiseuille flow in microchannel

    , Article Journal of Dispersion Science and Technology ; Volume 37, Issue 12 , 2016 , Pages 1767-1777 ; 01932691 (ISSN) Razaghi, R ; Saidi, M. H ; Sharif University of Technology
    Taylor and Francis Inc 
    Abstract
    In this paper, the hydrodynamic drag and lift forces on microparticles in a dilute suspension in low Reynolds number Poiseuille flow in a microchannel is experimentally investigated using microscopic image analysis. An effective technique is applied to manipulate single-particle tracking in order to determine the velocity field and hydrodynamic forces on microparticles with diameter-to-channel height ratio of 0.1 (Formula presented.) in microchannels. The results show that there is a distance near the walls of the channel in which the hydrodynamic coupling between the particles and channel walls is considerable. Also, the magnitude of drag force that is imposed on the particles with... 

    Evaluation of chemicals interaction with heavy crude oil through water/oil emulsion and interfacial tension study

    , Article Energy and Fuels ; Vol. 27, issue. 10 , September , 2013 , p. 5852-5860 ; ISSN: 08870624 Dehghan, A. A ; Masihi, M ; Ayatollahi, S ; Sharif University of Technology
    Abstract
    A newly-designed surfactant was formulated to tolerate the harsh conditions of oil reservoirs, including high salinity of the formation brine and temperature. The specific emulsion and interfacial tension (IFT) behavior of this new surface active agent were investigated by performing emulsion stability tests, emulsion size analysis, and IFT behavior in the presence of four different types of alkalis. Image processing was utilized to analyze the droplet size distribution using microscopic images of the samples. The results show that depending on the composition of the mixtures, the optimum phase region and interfacial tension behavior change considerably. Solutions containing a higher... 

    Effect of resins on asphaltene deposition and the changes of surface properties at different pressures: A microstructure study

    , Article Energy and Fuels ; Vol. 28, issue. 4 , April , 2014 , pp. 2415-2421 ; ISSN: 08870624 Soorghali, F ; Zolghadr, A ; Ayatollahi, S ; Sharif University of Technology
    Abstract
    Asphaltene deposition has hindered oil production from asphaltenic oil reservoirs through deposition in reservoir rock and surface facilities. This paper investigates the effect of resin on asphaltene deposition at different pressures. To investigate the asphaltene deposition in the presence of resins at reservoir temperature and different pressures, a pressure, volume, and temperature (PVT) visual cell was designed. A high-resolution microscope and image processing software were used to detect and determine the amount of deposited asphaltene as well as its size distribution at different conditions. Two types of Iranian crude oils with different potential of deposition (low and high) were... 

    Effect of carbon nanotube dispersion and network formation on thermal conductivity of thermoplastic polyurethane/carbon nanotube nanocomposites

    , Article Polymer Engineering and Science ; Volume 56, Issue 4 , 2016 , Pages 394-407 ; 00323888 (ISSN) Pircheraghi, G ; Powell, T ; Solouki Bonab, V ; Manas Zloczower, I ; Sharif University of Technology
    Abstract
    Carbon nanotubes (CNTs) were dispersed without any solvent in poly(tetramethylene ether glycol), (PTMEG) well above its melting point by ultrasonication in the pulse mode and different times. The polyol/CNT suspensions were used to prepare in situ polymerized thermoplastic polyurethane TPU/CNT nanocomposites with the CNT concentration of ∼ 0.05 vol%, much below the CNT geometrical percolation threshold calculated at 0.43 vol%. Results of rotational rheological measurements and ultraviolet-visible (UV-Vis) spectroscopy analysis revealed improvement in the nanoscale CNT dispersion with sonication time. Moreover, the optical microscopic images and sedimentation behavior for these samples... 

    Concavity degree: A new feature for chromosome centromere localization

    , Article AISP 2012 - 16th CSI International Symposium on Artificial Intelligence and Signal Processing ; 2012 , Pages 58-63 ; 9781467314794 (ISBN) Mohammadi, M. R ; Sharif University of Technology
    2012
    Abstract
    Analyzing the features of the chromosomes can be very useful for diagnosis of many genetic disorders or prediction of the possible abnormalities that may occur in the future generations. For this purpose, karyotype is often used which to make it, there is necessary to identify each one of the 24 chromosomes from the microscopic images. Definition and extraction of the morphological and band pattern based features for each chromosome is the first step to identify them. An important class of the morphological features is the location of the chromosome's centromere. Thus, centromere localization is an initial step in designing an automatic karyotyping system. In this paper, a novel algorithm...