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metabolism
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The metabolome profiling of obese and non-obese individuals: Metabolically healthy obese and unhealthy non-obese paradox
, Article Iranian Journal of Basic Medical Sciences ; Volume 23, Issue 2 , 2020 , Pages 186-194 ; Madani, N. H ; Ghoochani, B. F. N. M ; Safari Alighiarloo, N ; Khamseh, M. E ; Sharif University of Technology
Mashhad University of Medical Sciences
2020
Abstract
Objective(s): The molecular basis of “metabolically healthy obese” and “metabolically unhealthy non-obese” phenotypes is not fully understood. Our objective was to identify metabolite patterns differing in obese (metabolically healthy vs unhealthy (MHO vs MUHO)) and non-obese (metabolically healthy vs unhealthy (MHNO vs MUHNO)) individuals. Materials and Methods: This case-control study was performed on 86 subjects stratified into four groups using anthropometric and clinical measurements: MHO (21), MUHO (21), MHNO (22), and MUHNO (22). Serum metabolites were profiled using nuclear magnetic resonance (NMR). Multivariate analysis was applied to uncover discriminant metabolites, and enrichment...
The metabolic network model of primed/naive human embryonic stem cells underlines the importance of oxidation-reduction potential and tryptophan metabolism in primed pluripotency
, Article Cell and Bioscience ; Volume 9, Issue 1 , 2019 ; 20453701 (ISSN) ; Marashi, S. A ; Sharifi Zarchi, A ; Taleahmad, S ; Sharif University of Technology
BioMed Central Ltd
2019
Abstract
Background: Pluripotency is proposed to exist in two different stages: Naive and Primed. Conventional human pluripotent cells are essentially in the primed stage. In recent years, several protocols have claimed to generate naive human embryonic stem cells (hESCs). To the best of our knowledge, none of these protocols is currently recognized as the gold standard method. Furthermore, the consistency of the resulting cells from these diverse protocols at the molecular level is yet to be shown. Additionally, little is known about the principles that govern the metabolic differences between naive and primed pluripotency. In this work, using a computational approach, we tried to shed light on...
The influence of carrier material on the dominance of polyphosphate-accumulating organism metabolism in the biofilm-based biological phosphorus removal process
, Article Chemical Engineering Journal ; Volume 450 , 2022 ; 13858947 (ISSN) ; Raie, M ; Borghei, S. M ; Appels, L ; Dewil, R ; Sharif University of Technology
Elsevier B.V
2022
Abstract
This study reveals that the type of carrier material affects the stoichiometry of the anaerobic conversion and the metabolism in cultures enriched with polyphosphate-accumulating organisms (PAOs) and helps increase the biological phosphorus removal performance. PAO-enriched biofilms were cultivated in two identical lab-scale sequencing batch reactors containing different carrier types: a typical moving bed bioreactor carrier (MBBR) and a novel carbon-based moving carrier type (CBMC) coated by activated carbon particles. The experiments were conducted at various influent PO43- concentrations (14, 17, 20 mg-PO43--P/L) and two aeration periods (220 and 460 min) under similar operating...
The highest inhibition coefficient of phenol biodegradation using an acclimated mixed culture
, Article Water Science and Technology ; Volume 73, Issue 5 , 2016 , Pages 1033-1040 ; 02731223 (ISSN) ; Sharifi Abdar, P. S ; Borghei, S. M ; Sharif University of Technology
IWA Publishing
2016
Abstract
In this study a membrane biological reactor (MBR) was operated at 25±1 °C and pH = 7.5±0.5 to treat synthetic wastewater containing high phenol concentrations. Removal efficiencies of phenol and chemical oxygen demand (COD)were evaluated at four various hydraulic retention times (HRTs) of 24, 12, 8, and 4 hours. The removal rate of phenol (5.51 kg-Phenol kg-VSS-1 d-1), observed at HRT of 4 h,was the highest phenol degradation rate in the literature.According toCODtests, therewere no significant organic matter in the effluent, and phenol was degraded completely by mixed culture. Substrate inhibition was calculated from experimental growth parameters using the Haldane, Yano, and Edward...
The Differential Diagnosis of Crohn's Disease and Celiac Disease Using Nuclear Magnetic Resonance Spectroscopy
, Article Applied Magnetic Resonance ; Volume 45, Issue 5 , May , 2014 , Pages 451-459 ; Kasmaee, L. M ; Sohrabzadeh, K ; Nejad, M. R ; Tafazzoli, M ; Oskouie, A. A ; Sharif University of Technology
Abstract
Crohn's disease and celiac disease belong to a group of autoimmune conditions that affect the digestive system, specifically the small intestine. They both attack the digestive tract and share many symptoms. Thus, the discovery of proper methods would be a major step toward differentiating celiac disease from Crohn's disease. The aim of this study was to search for the metabolic biomarkers to differentiate between these two diseases. Proton nuclear magnetic resonance spectroscopy (1H NMR) was employed as the metabolic profiling method to look for serum metabolites that differentiate between celiac disease and Crohn's disease. Classification of celiac disease and Crohn's disease was done...
The association of clinicopathological characterizations of colorectal cancer with membrane-bound mucins genes and LncRNAs
, Article Pathology Research and Practice ; Volume 233 , 2022 ; 03440338 (ISSN) ; Entezari, M ; Rejali, L ; Nazemalhosseini-Mojarad, E ; Maghsoudloo, M ; Asadzadeh Aghdaei, H ; Zali, M. R ; Hushmandi, K ; Rabiee, N ; Makvandi, P ; Ashrafizadeh, M ; Hashemi, M ; Sharif University of Technology
Elsevier GmbH
2022
Abstract
Background: Colorectal cancer (CRC) is one of the most common malignancies in the world and has a high mortality rate. It is believed that dysfunction in the expression of mucins and aberrant expression of some lncRNAs are associated with the occurrence and development of CRC. Therefore, the aim of the present study was to investigate the expression of MUC15, MUC16, MUC20, PCAT1, CCAT1 and HOTAIR genes in colorectal cancer and its relationship with clinicopathological variables. Materials and methods: This research was prospective case-control study. Tumors from CRC patients were collected from the Taleghani Hospital, Shahid Beheshti University of Medical Sciences, Tehran, Iran. RNA...
Synthesis and characterization of rGO/Fe2O3 nanocomposite as an efficient supercapacitor electrode material
, Article Journal of Materials Science: Materials in Electronics ; Volume 31, Issue 17 , 2020 , Pages 14998-15005 ; Nemati, A ; Malek Khachatourian, A ; Golmohammad, M ; Sharif University of Technology
Springer
2020
Abstract
The reduced graphene oxide-Fe2O3 (rGO-Fe2O3) nanocomposites were synthesized by a facile and low-cost hydrothermal method employing rGO and Iron (III) nitrate precursors. The synthesis parameters including the reduction time and presence of reduction aid are studied. The structural and morphological studies of the nanocomposites were investigated by using Raman spectra, Fourier transform infrared spectroscopy, X-ray diffraction, and field emission scanning electron microscopy. The results indicate that Fe2O3 nanoparticles with average particle size of 25 nm are well anchored on graphene sheets and the weight percent of the nanoparticles in the nanocomposites was influenced by the reduction...
Synthesis, crystal structure and catalytic activity of a novel Mo(VI)-oxazoline complex in highly efficient oxidation of sulfides to sulfoxides by urea hydrogen peroxide
, Article Inorganica Chimica Acta ; Volume 361, Issue 7 , 2008 , Pages 2019-2024 ; 00201693 (ISSN) ; Tahsini, L ; Latifi, R ; Ellern, A ; Woo, L. K ; Sharif University of Technology
Elsevier S.A
2008
Abstract
Novel molybdenum complex, cis-[MoO2(phox)2] has been synthesized and characterized by IR, 1H NMR, elemental analyses (CHN), and X-ray molecular structure determination methods. This complex was found to be an efficient, selective catalyst for the oxidation of various sulfides to sulfoxides with urea hydrogen peroxide (UHP) in excellent yields (100% for diallylsulfide) and short reaction times (20 min) at room temperature. The catalytic system oxidizes diallylsulfide chemoselectively to its corresponding sulfoxide without any over oxidation in double bond. © 2007 Elsevier B.V. All rights reserved
Supported deep eutectic liquid membranes with highly selective interaction sites for efficient CO2 separation
, Article Journal of Molecular Liquids ; Volume 342 , 2021 ; 01677322 (ISSN) ; Khan, A. L ; Gilani, M. A ; Bilad, M. R ; Khan, A. U ; Sharif University of Technology
Elsevier B.V
2021
Abstract
This study demonstrates a new strategy in which deep eutectic solvents (DES), a new class of sustainable organic solvents, were impregnated into micro porous polymer support for separation of CO2 from CH4. Three different types of DESs were prepared by mixing and subsequent heating of betaine as hydrogen bond acceptor (HBA) in combination with either glycerol (G), ethylene glycol (EG) or urea (U) as hydrogen bond donors (HBD) in 1:3 stoichiometric mole ratio. The Fourier transform infrared (FTIR) spectroscopy was performed to confirm the formation of DESs. The gas permeation results showed that permeability of CO2 increased from 31.23 to 35.67 Barrer on substitution of HBD from glycerol to...
Study of epithelial differentiation and protein expression of keratinocyte-mesenchyme stem cell co-cultivation on electrospun nylon/B. vulgaris extract composite scaffold
, Article Materials Science and Engineering C ; Volume 75 , 2017 , Pages 653-662 ; 09284931 (ISSN) ; Soleimani, M ; Vossoughi, M ; Ranjbarvan, P ; Hamedi, S ; Zamanlui, S ; Mahmoudifard, M ; Sharif University of Technology
Abstract
Employing of the composite electrospun scaffold containing herbal extract in conjugation with co-culturing of cells can open up new window to the design of efficient biomaterials for skin tissue regeneration. Here, we introduce the synergistic effect of composite electrospun nanofibrous scaffold of nylon66 loaded with Beta vulgaris (B. vulgaris) (extract of beet roots, a plants whose widely used in Iranian folk medicine as wound healing medicine) and co-culture of mesenchymal stem-cells (MSCs)-human keratinocyte (H-keratino) differentiation towards epithelial lineage. In vitro biocompatibility was examined through MTT assay and epithelial differentiation checked by real-time PCR and...
Structural stability and sustained release of protein from a multilayer nanofiber/nanoparticle composite
, Article International Journal of Biological Macromolecules ; Volume 75 , April , 2015 , Pages 248-257 ; 01418130 (ISSN) ; Mashayekhan, S ; Shabani, I ; Khorashadizadeh, M ; Fallah, A ; Soleimani, M ; Sharif University of Technology
Elsevier
2015
Abstract
The cellular microenvironment can be engineered through the utilization of various nano-patterns and matrix-loaded bioactive molecules. In this study, a multilayer system of electrospun scaffold containing chitosan nanoparticles was introduced to overcome the common problems of instability and burst release of proteins from nanofibrous scaffolds. Bovine serum albumin (BSA)-loaded chitosan nanoparticles was fabricated based on ionic gelation interaction between chitosan and sodium tripolyphosphate. Suspension electrospinning was employed to fabricate poly-e{open}-caprolacton (PCL) containing protein-loaded chitosan nanoparticles with a core-shell structure. To obtain the desired scaffold...
StrongestPath: a Cytoscape application for protein-protein interaction analysis
, Article BMC bioinformatics ; Volume 22, Issue 1 , 2021 , Pages 352- ; 14712105 (ISSN) ; Khodabandeh, M ; Sharifi Zarchi, A ; Nadafian, A ; Mahmoudi, A ; Sharif University of Technology
NLM (Medline)
2021
Abstract
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...
Specific targeting delivery to MUC1 overexpressing tumors by albumin-chitosan nanoparticles conjugated to DNA aptamer
, Article International Journal of Pharmaceutics ; Volume 515, Issue 1-2 , 2016 , Pages 607-615 ; 03785173 (ISSN) ; Mohammadi, A ; Atyabi, F ; Nabavi, S. M ; Ebrahimi, S. M ; Shahmoradi, E ; Shiri Varnamkhasti, B ; Ghahremani, M. H ; Dinarvand, R ; Sharif University of Technology
Elsevier B.V
2016
Abstract
Chitosan-coated human serum albumin nanoparticles were functionalized by MUC1 aptamer to obtain a selective drug carrier toward cancers overexpressing MUC1. The negative charges of albumin nanoparticles were shifted to positive charges by surface modification with chitosan, and MUC1 was conjugated through an acrylate spacer. The cytotoxicity of targeted nanoparticles was significantly more than non-aptamer nanoparticles, and also the chitosan-coated nanoparticles had more cytotoxic effects than the negatively charged albumin nanoparticles. The IC50 of targeted nanoparticles was 28 and 26% of free paclitaxel in MCF7 and T47D cells at 48 h, respectively. Confocal laser scanning electron...
Solid state fermentation for production of chitosan by aspergillus niger
, Article International Journal of Engineering, Transactions B: Applications ; Volume 22, Issue 1 , 2009 , Pages 1-6 ; 1728-144X (ISSN) ; Razavi, J ; Yaghmaei, S ; Sharif University of Technology
Materials and Energy Research Center
2009
Abstract
The effect of Solid State Fermentation (SSF) on Chitosan production by A. niger was investigated. A. niger BBRC 20004 from Biochemical and Bioenvironmental Research Centre of Sharif University of Technology (Tehran, Iran), was grown on corn residue. Chitosan was extracted from the fungal mycelia using hot alkaline and acid treatment. A. niger was incubated for 12 days on corn residue with moisture content of 35 % and 1.12 % of nitrogen. The Chitosan was obtained and 10.9 g/kg of Urea dry residue was added in various amounts to the medium in order to evaluate the effect of the nitrogen concentration in the production of Chitosan. The highest amount of Chitosan obtained by 6.5 g of urea after...
Smart liposomal drug delivery for treatment of oxidative stress model in human embryonic stem cell-derived retinal pigment epithelial cells
, Article International Journal of Pharmaceutics ; Volume 548, Issue 1 , 2018 , Pages 62-72 ; 03785173 (ISSN) ; Abdkhodaie, M. J ; Sadeghi Abandansari, H ; Satarian, L ; Kazemi Ashtiani, M ; Jaafari, M. R ; Baharvand, H ; Sharif University of Technology
Abstract
Oxidative stress has been implicated in the progression of age-related macular degeneration (AMD). Treatment with antioxidants seems to delay progression of AMD. In this study, we suggested an antioxidant delivery system based on redox-sensitive liposome composed of phospholipids and a diselenide centered alkyl chain. Dynamic light scattering assessment indicated that the liposomes had an average size of 140 nm with a polydispersity index below 0.2. The percentage of encapsulation efficiency of the liposomes was calculated by high-performance liquid chromatography. The carriers were loaded with N-acetyl cysteine as a model antioxidant drug. We demonstrated responsiveness of the nanocarrier...
Short-term effects of particle size fractions on circulating biomarkers of inflammation in a panel of elderly subjects and healthy young adults
, Article Environmental Pollution ; Volume 223 , 2017 , Pages 695-704 ; 02697491 (ISSN) ; Naddafi, K ; Kashani, H ; Faridi, S ; Kunzli, N ; Nabizadeh, R ; Momeniha, F ; Gholampour, A ; Arhami, M ; Zare, A ; Pourpak, Z ; Hoseini, M ; Yunesian, M ; Sharif University of Technology
Abstract
Systemic inflammation biomarkers have been associated with risk of cardiovascular morbidity and mortality. We aimed to clarify associations of acute exposure to particulate matter (PM10(PM < 10 μm), PM2.5-10(PM 2.5–10 μm), PM2.5(PM < 2.5 μm), PM1-2.5(PM 1–2.5 μm), and PM1 (PM < 1 μm)) with systemic inflammation using panels of elderly subjects and healthy young adults. We followed a panel of 44 nonsmoking elderly subjects living in a retirement home and a panel of 40 healthy young adults living in a school dormitory in Tehran city, Iran from May 2012 to May 2013. Blood biomarkers were measured one every 7–8 weeks and included white blood cells (WBC), high sensitive C-reactive protein...
Self-supported nanoporous Zn–Ni–Co/Cu selenides microball arrays for hybrid energy storage and electrocatalytic water/urea splitting
, Article Chemical Engineering Journal ; Volume 375 , 2019 ; 13858947 (ISSN) ; Shahrokhian, S ; Sharif University of Technology
Elsevier B.V
2019
Abstract
The phase-pure multiple ternary or quaternary metal selenides in energy boosting, have not been reported yet. Here, self-supported porous crystalline Zn–Ni–Co/Cu selenides microballs arrays were constructed by selenation of the designed tubular Cu(OH)2 arrays decorated with ultrathin Zn–Co–Ni tri-metallic hydroxide on carbon cloth substrate. For this rational engineering, a novel precursor sample was firstly prepared by conversion of deposited Cu layer to hollow tubular Cu(OH)2 arrays on carbon cloth, then, Zn-Co–Ni layered ternary hydroxides with a thin layer structure was deposited around this tubular arrays. The selenation with an exciting morphology change from amorphous tube to highly...
Seasonal variations in the oxidative stress and inflammatory potential of PM2.5 in Tehran using an alveolar macrophage model; The role of chemical composition and sources
, Article Environment International ; Volume 123 , 2019 , Pages 417-427 ; 01604120 (ISSN) ; Antkiewicz, D. S ; Hemming, J. D. C ; Shafer, M. M ; Lai, A. M ; Arhami, M ; Hosseini, V ; Schauer, J. J ; Sharif University of Technology
Elsevier Ltd
2019
Abstract
The current study was designed to assess the association between temporal variations in urban PM2.5 chemical composition, sources, and the oxidative stress and inflammatory response in an alveolar macrophage (AM) model. A year-long sampling campaign collected PM2.5 samples at the Sharif University in Tehran, Iran. PM-induced reactive oxygen species (ROS) production was measured both with an acellular dithiothreitol consumption assay (DTT-ROS; ranged from 2.1 to 9.3 nmoles min−1 m−3) and an in vitro macrophage-mediated ROS production assay (AM-ROS; ranged from 125 to 1213 μg Zymosan equivalents m−3). The production of tumor necrosis factor alpha (TNF-α; ranged from ~60 to 518 pg TNF-α m−3)...
S494 O-glycosylation site on the SARS-CoV-2 RBD affects the virus affinity to ACE2 and its infectivity; a molecular dynamics study
, Article Scientific Reports ; Volume 11, Issue 1 , 2021 ; 20452322 (ISSN) ; Azimzadeh Irani, M ; Amininasab, M ; Ejtehadi, M. R ; Sharif University of Technology
Nature Research
2021
Abstract
SARS-CoV-2 is a strain of Coronavirus family that caused the ongoing pandemic of COVID-19. Several studies showed that the glycosylation of virus spike (S) protein and the Angiotensin-Converting Enzyme 2 (ACE2) receptor on the host cell is critical for the virus infectivity. Molecular Dynamics (MD) simulations were used to explore the role of a novel mutated O-glycosylation site (D494S) on the Receptor Binding Domain (RBD) of S protein. This site was suggested as a key mediator of virus-host interaction. By exploring the dynamics of three O-glycosylated models and the control systems of unglcosylated S4944 and S494D complexes, it was shown that the decoration of S494 with elongated O-glycans...
Role of carrier characteristics affecting microbial density and population in enhanced nitrogen and phosphorus removal from wastewater
, Article Journal of Environmental Management ; Volume 302 , 2022 ; 03014797 (ISSN) ; Raie, M ; Borghei, S. M ; Dewil, R ; Appels, L ; Sharif University of Technology
Academic Press
2022
Abstract
This research aims to improve simultaneous nitrification-denitrification and phosphorus removal (SNDPR) using novel carriers and to demonstrate the effect of carrier characteristics on nutrient removal in a biofilm reactor. For this purpose, biofilms enriched with both polyphosphate-accumulating organisms (PAOs) and nitrifiers were cultivated in two parallel sequencing batch reactors containing conventional moving bed bioreactor carriers (MBBR) and a novel type of carriers (carbon-based moving carriers (CBMC)). The new carriers were produced based on recycled waste materials via a chemical-thermal process and their specific surface area were 10.4 times higher than typical MBBR carriers of...