Transcriptional regulatory network analysis of the over-expressed genes in adipose tissue

Mohammad Reza Bakhtiarizadeh,Esmaeil Ebrahimie,Mohammad Moradi-Shahrbabak 한국유전학회 2014 Genes & Genomics Vol.36 No.1

Adipose tissue plays important roles in wholebody energy homeostasis and is now known to be a veryimportant and active endocrine organ. The transcriptionalregulatory network of adipose tissue metabolism is complexand much yet to be known. To identify transcriptionalprofile in adipose tissue, expressed sequence tag (EST)analysis using Digital Differential Display (DDD) wasemployed. The results of EST analysis were re-evaluatedby microarray data using COXPRESdb (an availableexpression data repository). To uncover transcriptionalregulatory mechanisms which play key roles in the adiposetissue metabolism, transcriptional regulatory network analysiswas applied, using the promoter analysis and interactionnetwork toolset. Sixty-five transcripts were found tobe more frequent in adipose tissue in comparison to theother tissues. COXPRESdb result showed that 62 % of the identified over-expressed genes in adipose tissue by DDDhad expression level greater than 1 (in base 2 logarithm). Based on coincidence of regulatory sites, candidate TFswere identified including TFs that previously known to beinvolved in adipose tissue metabolism (SP1, KROX,STAT1, LRF, VDR, LXR, SRF and HIF1) and TFs, such asCKROX, ZF5, ETF, AP-2, AP-2alpha, PAX-5, SPZ1,RBPJ and CACD, that had not been recognized previously. This work yielded several TF candidates activating inadipose tissue metabolism. These findings open a newavenue for future research on promoter occupancy and TFperturbation.

Intelligent Robust Fuzzy-Parallel Optimization Control of a Continuum Robot Manipulator

Mohammad Mahdi Ebrahimi,Farzin Piltan,Mansour Bazregar,AliReza Nabaee 보안공학연구지원센터 2013 International Journal of Control and Automation Vol.6 No.3

The Relationship between the Metabolic Syndrome and the Risk of Obstructive Sleep Apnea Evaluated by STOP-Bang Questionnaire in Professional Drivers in Shahroud, Iran, in 2020: A Case-Control Study

Mohammad Hossein Ebrahimi,Shayesteh Jahanfar,Mina Shayestefar 대한비만학회 2021 The Korean journal of obesity Vol.30 No.1

Background: The present study was conducted to investigate the relationship between metabolic syndrome and the risk of respiratory and sleep disorders in professional drivers. Methods: This case-control study was conducted on professional drivers in Shahroud, Iran. The snoring, tiredness during daytime, observed apnea, high blood pressure, body mass index, age, neck circumference, gender (STOP-Bang) questionnaire was first used to assess obstructive sleep apnea (OSA). Then, based on the questionnaire scores, the participants were divided into two groups: those with and those without OSA. The relationship between this disorder and metabolic syndrome was then studied. Data were analyzed using descriptive and analytical tests (P<0.05). Results: Based on the STOP-Bang questionnaire, 214 drivers with a high risk of OSA and 214 drivers with low risk were recruited for the study. According to the Adult Treatment Panel III criteria, 204 drivers (47.7%) had metabolic syndrome. There was a significant relationship between driver’s license class and the risk of OSA. Metabolic syndrome components including fasting blood sugar, triglycerides, and hypertension, but not high-density lipoprotein cholesterol, were able to predict OSA in the professional drivers. Conclusion: Given the high prevalence of metabolic syndrome and OSA, especially in drivers of high risk who may spend long hours transporting good and operating passenger vehicles, screening and treating these disorders are crucial in this part of the population. The researchers recommend holding regular training sessions about these disorders for professional drivers.

Swing Angle Estimation for Anti-Sway Overhead Crane Control Using Load Cell

Mohammad Ebrahimi,Mostafa Ghayour,Seyed M. Madani,Amir Khoobroo 제어·로봇·시스템학회 2011 International Journal of Control, Automation, and Vol.9 No.2

Overhead crane movement results in suspended load sway, which may cause dangers and damages. Common anti-sway methods are based on swing angle information. This paper presents a novel method that uses load cell sensors for swing angle estimation. According to our proposed method, a damping signal is generated and added to the speed reference in order to suppress the suspended load sway. Conventional methods of swing angle estimation are based on measurement by camera vision, acceleration, or some other type of sensor. Compared to conventional methods, the proposed method based on load cell is simpler to build and less sensitive to ambient conditions. The effectiveness of the method is verified by computer simulation.

Evaluation of a moving bed biofilm reactor for simultaneous atrazine, carbon and nutrients removal from aquatic environments: Modeling and optimization

Zahra Derakhshan,Mohammad Hassan Ehrampoush,Amir Hossein Mahvi,Mansooreh Dehghani,Mohammad Faramarzian,Mohammad Taghi Ghaneian,Mehdi Mokhtari,Ali Asghar Ebrahimi,Hossein Fallah Zadeh 한국공업화학회 2018 Journal of Industrial and Engineering Chemistry Vol.67 No.-

The present study examined a moving bed biofilm reactor (MBBR) bioreactor on a laboratory scale for simultaneous removal of atrazine, organic carbon, and nutrients from wastewater. The maximum removal efficiency of atrazine, chemical oxygen demand (COD), total phosphorus (TP) and total nitrogen (TN) were 83.57%, 90.36%, 90.74% and 87.93 respectively. Increasing salinity up to 40 g/L NaCl in influent flow could inhibit atrazine biodegradation process strongly in the MBBR reactor.Results showed that MBBR is so suitable process for efficiently biodegrading of atrazine and nitrogen removal process was based on the simultaneous nitrification-denitrification (SND) process.

Comparative study of ammonium transporters in different organisms by study of a large number of structural protein features via data mining algorithms

Ehsan Tahrokh,Mansour Ebrahimi,Mahdi Ebrahimi,Fatemeh Zamansani,Narjes Rahpeyma Sarvestani,Manijeh Mohammadi-Dehcheshmeh,Mohammad Reza Ghaemi,Esmaeil Ebrahimie 한국유전학회 2011 Genes & Genomics Vol.33 No.5

Ammonium is an excellent nitrogen source, and ammonium transfer is a fundamental process in most organisms. Membrane transport of ammonium is the key component of nitrogen metabolism mediated by Ammonium Transporter/Methylamine Permease/Rhesus (AMT/MEP/Rh) protein family. Ammonium transporters play different physiological roles in various organisms. Here, we looked at the protein characteristics of ammonium transporters in different organisms to create a link between protein characteristics and the organism. In order to increase the accuracy and precision of the employed models,for the first time, an attempt was made to cover all structural aspects of ammonium transporters in animals, bacteria, fungi,plants, and human by extracting and calculating 874 protein attributes of primary, secondary, and tertiary structures for each ammonium transporter. Then, various weighting and modeling algorithms were applied to determine how structural protein features change between organisms. Considering a large number of protein attributes made it possible to detect key protein characteristics in the structure of ammonium transporters. The results, for the first time, indicated that His-based features including count/frequency of His and frequency/count of Ile-His were the most significant features generating different types of ammonium transporters within organisms. Within different tested models, the C5.0 model was the most efficient and precise model for discrimination of organism type, based on ammonium transporter sequence, with the precision of 94.85%. The determination of protein characteristics of ammonium transporters in different organisms provides a new vista for understanding the evolution of transporters based on the modulation of protein characteristics and facilitates engineering of new transporters. In our point of view, dissecting a large number of structural protein characteristics through data mining algorithms provides a novel functional strategy for studying evolution and phylogeny. This research will serve as a basis for future studies on engineering novel ammonium transporters.

In situ Preparation of PVA/Schizophyllan-AgNPs Nanofiber as Potential of Wound Healing: Characterization and Cytotoxicity

Mohammad Reza Safaee-Ardakani,Ashrafalsadat Hatamian-Zarmi,Seyedeh Mahdieh Sadat,Zahra Beagom Mokhtari-Hosseini,Bahman Ebrahimi-Hosseinzadeh,Hamid Kooshki,Jamal Rashidiani 한국섬유공학회 2019 Fibers and polymers Vol.20 No.12

The use of natural polymers and electrospinning as a new method of wound dressing production is one of thethings that can revolutionize the medical world. Due to the importance of wound healing and characteristics such as antiinflammatoryand antimicrobial properties, it is possible to use natural compounds such as fungi and metabolites derivedfrom them to produce wound dressing. In this study, schizophyllan (SPG) as an extracellular polysaccharide was extractedfrom Iranian Schizophyllum commune (NCBI MG761830) and then the silver nanoparticles (AgNPs) were produced by thein-situ method in 1.5 % SPG solution. Afterward, they were combined with polyvinyl alcohol 10 % (PVA) polymer tostrengthen the fiber structure. We investigated the properties of nanofibers containing PVA/SPG-AgNPs and PVA/SPG20 %. The physicochemical properties of two fibers were investigated by SEM, TEM, FTIR, contact angle, water uptake,nanoparticle release, and biological test (antibacterial, and MTT). The diameter of the nanofiber-containing the AgNPs wasabout 169 nm and the other nanofiber was about 212 nm. The highest inhibition of the growth of the bacterium by PVA/SPGAgNPsagainst E. coli and S. aureus was about 88.34 % and 64.7 %, respectively. The silver ion release from PVA/SPGAgNPsnanofibers was 21 μg/ml after fifth day. Both nanofibers had no toxic effect on L929 fibroblast cells.

Wave propagation analysis of smart strain gradient piezo-magneto-elastic nonlocal beams

Ebrahimi, Farzad,Barati, Mohammad Reza Techno-Press 2018 Structural Engineering and Mechanics, An Int'l Jou Vol.66 No.2

This study presents the investigation of wave dispersion characteristics of a magneto-electro-elastic functionally graded (MEE-FG) nanosize beam utilizing nonlocal strain gradient theory (NSGT). In this theory, a material length scale parameter is propounded to show the influence of strain gradient stress field, and likewise, a nonlocal parameter is nominated to emphasize on the importance of elastic stress field effects. The material properties of heterogeneous nanobeam are supposed to vary smoothly through the thickness direction based on power-law form. Applying Hamilton's principle, the nonlocal governing equations of MEE-FG nanobeam are derived. Furthermore, to derive the wave frequency, phase velocity and escape frequency of MEE-FG nanobeam, an analytical solution is employed. The validation procedure is performed by comparing the results of present model with results exhibited by previous papers. Results are rendered in the framework of an exact parametric study by changing various parameters such as wave number, nonlocal parameter, length scale parameter, gradient index, magnetic potential and electric voltage to show their influence on the wave frequency, phase velocity and escape frequency of MEE-FG nanobeams.

An exact solution for buckling analysis of embedded piezo-electro-magnetically actuated nanoscale beams

Ebrahimi, Farzad,Barati, Mohammad Reza Techno-Press 2016 Advances in nano research Vol.4 No.2

This paper investigates the buckling behavior of shear deformable piezoelectric (FGP) nanoscale beams made of functionally graded (FG) materials embedded in Winkler-Pasternak elastic medium and subjected to an electro-magnetic field. Magneto-electro-elastic (MEE) properties of piezoelectric nanobeam are supposed to be graded continuously in the thickness direction based on power-law model. To consider the small size effects, Eringen's nonlocal elasticity theory is adopted. Employing Hamilton's principle, the nonlocal governing equations of the embedded piezoelectric nanobeams are obtained. A Navier-type analytical solution is applied to anticipate the accurate buckling response of the FGP nanobeams subjected to electro-magnetic fields. To demonstrate the influences of various parameters such as, magnetic potential, external electric voltage, power-law index, nonlocal parameter, elastic foundation and slenderness ratio on the critical buckling loads of the size-dependent MEE-FG nanobeams, several numerical results are provided. Due to the shortage of same results in the literature, it is expected that the results of the present study will be instrumental for design of size-dependent MEE-FG nanobeams.

Effects of aqueous and methanolic extracts of Astragalus Longistylus on growth and proliferation of human dental pulp stem cells

Ebrahimi Maryam,Yaghoobi Mohammad Mehdi 경희대학교 융합한의과학연구소 2021 Oriental Pharmacy and Experimental Medicine Vol.21 No.1

Increasing stem cell proliferation and preventing their aging is a prerequisite for cell-based therapy. Astragalus Longistylushas been used as a medicinal plant for centuries and is widely dispersed in Iran. In this study, the effect of aqueous and metha-nolic extracts of A. Longistylus on the growth and proliferation of human dental pulp stem cells was investigated by MTT, BrdU and flow cytometry over 24 and 48 h. The antioxidant activity of the extracts was also measured by DPPH method. The expression of BTG1, CCND1, and HTERT genes were also analyzed by RT-qPCR. The results of the DPPH test showed that the aqueous and methanolic extracts at the concentration of 1000 μg/mL had 29.39% and 82.71% antioxidant activity, respectively. Both the aqueous and methanolic significantly increased the cell proliferation and DNA synthesis after 48 h as revealed by MTT and BrdU assay results. Cell cycle analysis showed that the cells arrested in the G1 phase upon treatment with both extracts after 24 h. However, after 48 h, the number of G1 cells was reduced while the number of cells in G2/M phase approached that of the control group. Meanwhile, expression of CCND1, TERT and BTG1 was reduced after 48 h by both extracts and increased following a 72 h treatment. Therefore, our findings demonstrate that the effect of the extracts on the cell proliferation was somewhat decreasing during 24 h and increasing after 48 h. These effects could be attributed to compounds such as flavonoids, polysaccharides, astragalosides, and calycosin.