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    Image Flow and INS Sensor Fusion for the Accurate Localization of Planner Micro Robots

    , M.Sc. Thesis Sharif University of Technology khomejani, Shabnaz (Author) ; Vossoughi, Gholamreza (Supervisor)
    This research focuses on the robust mobile robot localization exploiting motion information acquired from an optical mouse operating based on optical flow technology. Most techniques of visual motion measurement are based on the well research discipline called “optical flow”. Theoretically, optical flow as a method of localization can be highly accurate, but it is sensitive to the noise and surface texture/optical characteristics and distance variations between the CCD detector and surface. As one could not achieve acceptable results in practical situations, to handle these problems, we propose to attach an acceleration – gyro (INS) sensor on the CCD detector (optical mouse) to improve the... 

    Design and Synthesis of Novel Polyglycerol Hybrid Nanomaterials for Potential Applications in Drug Delivery Systems

    , Article Macromolecular Bioscience ; Volume 11, Issue 3 , NOV , 2011 , Pages 383-390 ; 16165187 (ISSN) Zarrabi, A ; Adeli, M ; Vossoughi, M ; Shokrgozar, M. A ; Sharif University of Technology
    The synthesis of a new drug delivery system based on hybrid nanomaterials containing a β-CD core and hyperbranched PG is described. Conjugating PG branches onto β-CD not only increases its water solubility but also affects its host/guest properties deeply. It can form molecular inclusion complexes with small hydrophobic guest molecules such as ferrocene or FITC with reasonable release. In addition, the achievable payloads are significantly higher as for carriers such as hyperbranched PGs. Short-term in vitro cytotoxicity and hemocompatibility tests on L929 cell lines show that the hybrid nanomaterial is highly biocompatible. Due to their outstanding properties, β-CD-g-PG hybrid nanomaterials... 

    Core-sheath gelatin based electrospun nanofibers for dual delivery release of biomolecules and therapeutics

    , Article Materials Science and Engineering C ; Volume 108 , 2020 Zandi, N ; Lotfi, R ; Tamjid, E ; Shokrgozar, M. A ; Simchi, A ; Sharif University of Technology
    Elsevier Ltd  2020
    Coaxial electrospinning with the ability to use simultaneously two separate solvents provides a promising strategy for drug delivery. Nevertheless, controlled release of hydrophilic and sensitive therapeutics from slow biodegradable polymers is still challenging. To address this gap, we fabricated core-sheath fibers for dual delivery of lysozyme, as a model protein, and phenytoin sodium as a small therapeutic molecule. The sheath was processed by a gelatin solution while the core fibers were fabricated from an aqueous gelatin/PVA solution. Microstructural studies by transmission and scanning electron microscopy reveal the formation of homogeneous core-sheath nanofibers with an outer and... 

    Type V collagen in scar tissue regulates the size of scar after heart injury

    , Article Cell ; Volume 182, Issue 3 , 2020 , Pages 545-562.e23 Yokota, T ; McCourt, J ; Ma, F ; Ren, S ; Li, S ; Kim, T. H ; Kurmangaliyev, Y. Z ; Nasiri, R ; Ahadian, S ; Nguyen, T ; Tan, X. H. M ; Zhou, Y ; Wu, R ; Rodriguez, A ; Cohn, W ; Wang, Y ; Whitelegge, J ; Ryazantsev, S ; Khademhosseini, A ; Teitell, M. A ; Chiou, P. Y ; Birk, D. E ; Rowat, A. C ; Crosbie, R. H ; Pellegrini, M ; Seldin, M ; Lusis, A. J ; Deb, A ; Sharif University of Technology
    Cell Press  2020
    Scar tissue size following myocardial infarction is an independent predictor of cardiovascular outcomes, yet little is known about factors regulating scar size. We demonstrate that collagen V, a minor constituent of heart scars, regulates the size of heart scars after ischemic injury. Depletion of collagen V led to a paradoxical increase in post-infarction scar size with worsening of heart function. A systems genetics approach across 100 in-bred strains of mice demonstrated that collagen V is a critical driver of postinjury heart function. We show that collagen V deficiency alters the mechanical properties of scar tissue, and altered reciprocal feedback between matrix and cells induces... 

    Functional analyses of recombinant mouse hepcidin-1 in cell culture and animal model

    , Article Biotechnology Letters ; Volume 35, Issue 8 , August , 2013 , Pages 1191-1197 ; 01415492 (ISSN) Yazdani, Y ; Keyhanvar, N ; Kalhor, H. R ; Rezaei, A ; Sharif University of Technology
    Hepcidin is a peptide hormone that plays an important role in iron metabolism. We have produced a recombinant mouse hepcidin-1 by using baculovirus expression system. Its expression yield was 25 μg/ml when cell culture media were supplemented with a protease inhibitor cocktail. The recombinant mouse hepcidin-1 and synthetic human hepcidin-25 had similar effects on reducing ferroportin expression in J774A cell line and in peritoneal macrophages. However, synthetic human hepcidin-25 was more efficient than recombinant mouse hepcidin-1 in reducing iron concentration in blood circulation (p < 0.01)  

    Fabrication of new magnetite-graphene nanocomposite and comparison of its laser-hyperthermia properties with conventionally prepared magnetite-graphene hybrid

    , Article Materials Science and Engineering C ; Volume 75 , 2017 , Pages 572-581 ; 09284931 (ISSN) Tayyebi, A ; Moradi, S ; Azizi, F ; Outokesh, M ; Shadanfar, K ; Mousavi, S. S ; Sharif University of Technology
    A single step supercritical method was introduced for synthesis of “magnetite - reduced graphene oxide (M-rGO)” composite in supercritical methanol. Modified surface, smaller size, lesser cytotoxicity, and homogenous dispersion of Fe3O4 nanoparticles on the graphene surface were advantages of this new M-rGO composite in comparison to the materials synthesized by conventional wet chemical method (M-GO). Nanocomposites were injected in tissue equivalent phantoms of agarose gel in 10 mg/g dosage, and were irradiated by a 1600 mW laser beam at wavelength of 800–810 nm. The M-rGO and M-GO were found to be the most and the least efficient samples for increasing the temperature of the phantom. As... 

    Tissue growth into three-dimensional composite scaffolds with controlled micro-features and nanotopographical surfaces

    , Article Journal of Biomedical Materials Research - Part A ; Volume 101, Issue 10 , 2013 , Pages 2796-2807 ; 15493296 (ISSN) Tamjid, E ; Simchi, A ; Dunlop, J. W. C ; Fratzl, P ; Bagheri, R ; Vossoughi, M ; Sharif University of Technology
    Controlling topographic features at all length scales is of great importance for the interaction of cells with tissue regenerative materials. We utilized an indirect three-dimensional printing method to fabricate polymeric scaffolds with pre-defined and controlled external and internal architecture that had an interconnected structure with macro- (400-500 μm) and micro- (∼25 μm) porosity. Polycaprolactone (PCL) was used as model system to study the kinetics of tissue growth within porous scaffolds. The surface of the scaffolds was decorated with TiO2 and bioactive glass (BG) nanoparticles to the better match to nanoarchitecture of extracellular matrix (ECM). Micrometric BG particles were... 

    Antitumor effect of therapeutic HPV DNA vaccines with chitosan-based nanodelivery systems

    , Article Journal of Biomedical Science ; Vol. 21, issue. 1 , July , 2014 ; ISSN: 10217770 Tahamtan, A ; Ghaemi, A ; Gorji, A ; Kalhor, H. R ; Sajadian, A ; Tabarraei, A ; Moradi, A ; Atyabi, F ; Kelishadi, M ; Sharif University of Technology
    Cervical cancer is the second-most-common cause of malignancies in women worldwide, and the oncogenic activity of the human papilloma virus types (HPV) E7 protein has a crucial role in anogenital tumors. In this study, we have designed a therapeutic vaccine based on chitosan nanodelivery systems to deliver HPV-16 E7 DNA vaccine, considered as a tumor specific antigen for immunotherapy of HPV-associated cervical cancer. We have developed a Nano-chitosan (NCS) as a carrier system for intramuscular administration using a recombinant DNA vaccine expressing HPV-16 E7 (NCS-DNA E7 vaccine). NCS were characterized in vitro for their gene transfection ability. Results: The transfection of CS-pEGFP... 

    Temporal activation of LRH-1 and RAR-γ in human pluripotent stem cells induces a functional naïve-like state

    , Article EMBO Reports ; Volume 21, Issue 10 , 2020 Taei, A ; Kiani, T ; Taghizadeh, Z ; Moradi, S ; Samadian, A ; Mollamohammadi, S ; Sharifi Zarchi, A ; Guenther, S ; Akhlaghpour, A ; Asgari Abibeiglou, B ; Najar Asl, M ; Karamzadeh, R ; Khalooghi, K ; Braun, T ; Hassani, S. N ; Baharvand, H ; Sharif University of Technology
    Wiley-VCH Verlag  2020
    Naïve pluripotency can be established in human pluripotent stem cells (hPSCs) by manipulation of transcription factors, signaling pathways, or a combination thereof. However, differences exist in the molecular and functional properties of naïve hPSCs generated by different protocols, which include varying similarities with pre-implantation human embryos, differentiation potential, and maintenance of genomic integrity. We show here that short treatment with two chemical agonists (2a) of nuclear receptors, liver receptor homologue-1 (LRH-1) and retinoic acid receptor gamma (RAR-γ), along with 2i/LIF (2a2iL) induces naïve-like pluripotency in human cells during reprogramming of fibroblasts,... 

    DNA methylation regulates discrimination of enhancers from promoters through a H3K4me1-H3K4me3 seesaw mechanism

    , Article BMC Genomics ; 2017 , Volume 18, Issue 1 ; 14712164 (ISSN) Sharifi Zarchi, A ; Gerovska, D ; Adachi, K ; Totonchi, M ; Pezeshk, H ; Taft, R. J ; Schöler, H. R ; Chitsaz, H ; Sadeghi, M ; Baharvand, H ; Araúzo Bravo, M. J ; Sharif University of Technology
    Background: DNA methylation at promoters is largely correlated with inhibition of gene expression. However, the role of DNA methylation at enhancers is not fully understood, although a crosstalk with chromatin marks is expected. Actually, there exist contradictory reports about positive and negative correlations between DNA methylation and H3K4me1, a chromatin hallmark of enhancers. Results: We investigated the relationship between DNA methylation and active chromatin marks through genome-wide correlations, and found anti-correlation between H3K4me1 and H3K4me3 enrichment at low and intermediate DNA methylation loci. We hypothesized "seesaw" dynamics between H3K4me1 and H3K4me3 in the low... 

    Expression and function of c1orf132 long-noncoding rna in breast cancer cell lines and tissues

    , Article International Journal of Molecular Sciences ; Volume 22, Issue 13 , 2021 ; 16616596 (ISSN) Shafaroudi, A. M ; Sharifi Zarchi, A ; Rahmani, S ; Nafissi, N ; Mowla, S. J ; Lauria, A ; Oliviero, S ; Matin, M. M ; Sharif University of Technology
    MDPI  2021
    miR-29b2 and miR-29c play a suppressive role in breast cancer progression. C1orf132 (also named MIR29B2CHG) is the host gene for generating both microRNAs. However, the region also expresses longer transcripts with unknown functions. We employed bioinformatics and experimental approaches to decipher C1orf132 expression and function in breast cancer tissues. We also used the CRISPR/Cas9 technique to excise a predicted C1orf132 distal promoter and followed the behavior of the edited cells by real-time PCR, flow cytometry, migration assay, and RNA-seq techniques. We observed that C1orf132 long transcript is significantly downregulated in triple-negative breast cancer. We also identified a... 

    Polyrotaxane capped quantum dots as new candidates for cancer diagnosis and therapy

    , Article Journal of Nanostructured Polymers and Nanocomposites ; Volume 7, Issue 1 , 2011 , Pages 18-31 ; 17904439 (ISSN) Sarabi, R. S ; Sadeghi, E ; Hosseinkhani, H ; Mahmoudi, M ; Kalantari, M ; Adeli, M ; Sharif University of Technology
    Molecular self-assembly of cadmium selenide quantum dots-end-capped polyrotaxane hybrid nanostructures (PRCdSe QDs) was led to a new type of core-shell hybrid nanomaterials consisting of cadmium selenide quantum dot (CdSe QDs) core and polyrotaxane shell (PR@QDs). Structure of PR@QDs was characterized using various techniques. It has been observed that the size of PR@QDs was between 20-25 nm in which diameter of core and thickness of shell were between 15-20 and 2-3 nm, respectively. Short-term in vitro cytotoxicity tests, using MTT (3-(4,5- dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide) assay, were conducted on mouse tissue connective fibroblast adhesive cell line (L929) in order to... 

    Dna-Rna hybrid (R-loop): From a unified picture of the mammalian telomere to the genome-wide profile

    , Article Cells ; Volume 10, Issue 6 , 2021 ; 20734409 (ISSN) Rassoulzadegan, M ; Sharifi Zarchi, A ; Kianmehr, L ; Sharif University of Technology
    MDPI  2021
    Local three-stranded DNA/RNA hybrid regions of genomes (R-loops) have been detected either by binding of a monoclonal antibody (DRIP assay) or by enzymatic recognition by RNaseH. Such a structure has been postulated for mouse and human telomeres, clearly suggested by the identification of the complementary RNA Telomeric repeat-containing RNA “TERRA”. However, the tremendous disparity in the information obtained with antibody-based technology drove us to investigate a new strategy. Based on the observation that DNA/RNA hybrids in a triplex complex genome co-purify with the double-stranded chromosomal DNA fraction, we developed a direct preparative approach from total protein-free cellular... 

    Doxorubicin hydrochloride - loaded electrospun chitosan/cobalt ferrite/titanium oxide nanofibers for hyperthermic tumor cell treatment and controlled drug release

    , Article International Journal of Biological Macromolecules ; Volume 116 , 2018 , Pages 378-384 ; 01418130 (ISSN) Radmansouri, M ; Bahmani, E ; Sarikhani, E ; Rahmani, K ; Sharifianjazi, F ; Irani, M ; Sharif University of Technology
    In the present study, the potential of doxorubicin hydrochloride (DOX)-loaded electrospun chitosan/cobalt ferrite/titanium oxide nanofibers was studied to investigate the simultaneous effect of hyperthermia and chemotherapy against melanoma cancer B16F10 cell lines. The cobalt ferrite nanoparticles were synthesized via microwave heating method. The titanium oxide nanoparticles were mixed with cobalt ferrite to control the temperature rise. The synthesized nanoparticles and nanofibers were characterized using X-ray diffraction (XRD), field emission scanning electron microscopy (FESEM), and vibrating sample magnetometer (VSM) analysis. The DOX loading efficiency and in vitro drug release of... 

    Diatoms with invaluable applications in nanotechnology, biotechnology, and biomedicine: Recent advances

    , Article ACS Biomaterials Science and Engineering ; Volume 7, Issue 7 , 2021 , Pages 3053-3068 ; 23739878 (ISSN) Rabiee, N ; Khatami, M ; Jamalipour Soufi, G ; Fatahi, Y ; Iravani, S ; Varma, R. S ; Sharif University of Technology
    American Chemical Society  2021
    Diatoms are unicellular microalga found in soil and almost every aquatic environment (marine and fresh water). Biogenic silica and diatoms are attractive for biotechnological and industrial applications, especially in the field of biomedicine, industrial/synthetic manufacturing processes, and biomedical/pharmaceutical sciences. Deposition of silica by diatoms allows them to create micro- or nanoscale structures which may be utilized in nanomedicine and especially in drug/gene delivery. Diatoms with their unique architectures, good thermal stability, suitable surface area, simple chemical functionalization/modification procedures, ease of genetic manipulations, optical/photonic... 

    Preparation and evaluation of bioactive and compatible starch based superabsorbent for oral drug delivery systems

    , Article Journal of Drug Delivery Science and Technology ; Volume 23, Issue 5 , 2013 , Pages 511-517 ; 17732247 (ISSN) Pourjavadi, A ; Ebrahimi, A. A ; Barzegar, S ; Sharif University of Technology
    Novel types of highly swelling hydrogels (superabsorbent) were prepared by grafting crosslinked poly acrylic acid-co-2-hydroxyethylmetacrylate (PAA-co-HEMA) chains onto starch through a free radical polymerization method. The effect of grafting variables (i.e., concentration of methylenebisacrylamide (MBA), acrylic acid/2-hydroxy methymetacrylate (AA/HEMA) weight ratio, ammonium persulfate (APS), starch, neutralization percent, were systematically optimized to achieve a hydrogel with a maximum swelling capacity. The superabsorbent (SAP) formation was confirmed by Fourier transform infrared spectroscopy (FT-IR) and scanning electron microscopy (SEM). The controlled-release behavior of... 

    Nonparametric simulation of signal transduction networks with semi-synchronized update

    , Article PLoS ONE ; Volume 7, Issue 6 , 2012 ; 19326203 (ISSN) Nassiri, I ; Masoudi Nejad, A ; Jalili, M ; Moeini, A ; Sharif University of Technology
    Simulating signal transduction in cellular signaling networks provides predictions of network dynamics by quantifying the changes in concentration and activity-level of the individual proteins. Since numerical values of kinetic parameters might be difficult to obtain, it is imperative to develop non-parametric approaches that combine the connectivity of a network with the response of individual proteins to signals which travel through the network. The activity levels of signaling proteins computed through existing non-parametric modeling tools do not show significant correlations with the observed values in experimental results. In this work we developed a non-parametric computational... 

    StrongestPath: a Cytoscape application for protein-protein interaction analysis

    , Article BMC bioinformatics ; Volume 22, Issue 1 , 2021 , Pages 352- ; 14712105 (ISSN) Mousavian, Z ; Khodabandeh, M ; Sharifi Zarchi, A ; Nadafian, A ; Mahmoudi, A ; Sharif University of Technology
    NLM (Medline)  2021
    BACKGROUND: StrongestPath is a Cytoscape 3 application that enables the analysis of interactions between two proteins or groups of proteins in a collection of protein-protein interaction (PPI) network or signaling network databases. When there are different levels of confidence over the interactions, the application is able to process them and identify the cascade of interactions with the highest total confidence score. Given a set of proteins, StrongestPath can extract a set of possible interactions between the input proteins, and expand the network by adding new proteins that have the most interactions with highest total confidence to the current network of proteins. The application can... 

    Preparation and characterization of self-electrical stimuli conductive gellan based nano scaffold for nerve regeneration containing chopped short spun nanofibers of PVDF/MCM41 and polyaniline/graphene nanoparticles: Physical, mechanical and morphological studies

    , Article International Journal of Biological Macromolecules ; Volume 167 , 2021 , Pages 881-893 ; 01418130 (ISSN) Mohseni, M ; S. A., A. R ; H Shirazi, F ; Nemati, N. H ; Sharif University of Technology
    Elsevier B.V  2021
    Conductive self -electrical stimuli bioactive scaffolds could be used the potential for peripheral nerve regeneration with the maximum efficiency. To produce such conductive self-electrical stimuli bioactive scaffolds, chopped spun piezoelectric nanofibers of polyvinylidene fluoride/mesoporous silica nanoparticle (PVDF/MCM41) are prepared and incorporated in gellan/polyaniline/graphene (gellan/PAG) nanocomposites which have been previously prepared by incorporation of polyaniline/graphene (PAG) nanoparticles in gellan gel at 80 °C. Highly conductive binary doped polyaniline/graphene nanoparticles are prepared by chemical oxidative polymerization of aniline monomer using in-suite... 

    Synergy between hemagglutinin 2 (HA2) subunit of influenza fusogenic membrane glycoprotein and oncolytic Newcastle disease virus suppressed tumor growth and further enhanced by Immune checkpoint PD-1 blockade

    , Article Cancer Cell International ; Volume 20, Issue 1 , August , 2020 Miri, S. M ; Ebrahimzadeh, M. S ; Abdolalipour, E ; Yazdi, M ; Hosseini Ravandi, H ; Ghaemi, A ; Sharif University of Technology
    BioMed Central Ltd  2020
    Background: Newcastle disease virus (NDV) has shown noticeable oncolytic properties, especially against cervical cancer. However, in order to improve the spread rate and oncotoxicity of the virus, employment of other therapeutic reagents would be helpful. It has been shown that some viral fusogenic membrane glycoproteins (FMGs) could facilitate viral propagation and increase the infection rate of tumor cells by oncolytic viruses. Additionally, immune checkpoint blockade has widely been investigated for its anti-tumor effects against several types of cancers. Here, we investigated for the first time whether the incorporation of influenza hemagglutinin-2 (HA2) FMG could improve the oncolytic...