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1. Recent RHIC in-situ coating technology developments

Author

Hershcovitch, A., Blaskiewicz, M., Brennan, J. M., Chawla, A., Fischer, W., Liaw, C-J, Meng, W., Todd, R., Custer, A., Erickson, M., Jamshidi, N., Kobrin, P., Laping, R., Poole, H. J., Jimenez, J. M., Neupert, H., Taborelli, M., Yin-Vallgren, C., and Sochugov, N.

Subjects
Physics - Accelerator Physics, Physics - Instrumentation and Detectors
Abstract

To rectify the problems of electron clouds observed in RHIC and unacceptable ohmic heating for superconducting magnets that can limit future machine upgrades, we started developing a robotic plasma deposition technique for $in-situ$ coating of the RHIC 316LN stainless steel cold bore tubes based on staged magnetrons mounted on a mobile mole for deposition of Cu followed by amorphous carbon (a-C) coating. The Cu coating reduces wall resistivity, while a-C has low SEY that suppresses electron cloud formation. Recent RF resistivity computations indicate that 10 {\mu}m of Cu coating thickness is needed. But, Cu coatings thicker than 2 {\mu}m can have grain structures that might have lower SEY like gold black. A 15-cm Cu cathode magnetron was designed and fabricated, after which, 30 cm long samples of RHIC cold bore tubes were coated with various OFHC copper thicknesses; room temperature RF resistivity measured. Rectangular stainless steel and SS discs were Cu coated. SEY of rectangular samples were measured at room; and, SEY of a disc sample was measured at cryogenic temperatures., Comment: 8 pages, contribution to the Joint INFN-CERN-EuCARD-AccNet Workshop on Electron-Cloud Effects: ECLOUD'12; 5-9 Jun 2012, La Biodola, Isola d'Elba, Italy

Published
2013
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8. New Australian guidelines for the treatment of alcohol problems: an overview of recommendations

Author

Haber, PS, Riordan, BC, Winter, DT, Barrett, L, Saunders, J, Hides, L, Gullo, M, Manning, V, Day, CA, Bonomo, Y, Burns, L, Assan, R, Curry, K, Mooney-Somers, J, Demirkol, A, Monds, L, McDonough, M, Baillie, AJ, Clark, P, Ritter, A, Quinn, C, Cunningham, J, Lintzeris, N, Rombouts, S, Savic, M, Norman, A, Reid, S, Hutchinson, D, Zheng, C, Iese, Y, Black, N, Draper, B, Ridley, N, Gowing, L, Stapinski, L, Taye, B, Lancaster, K, Stjepanović, D, Kay-Lambkin, F, Jamshidi, N, Lubman, D, Pastor, A, White, N, Wilson, S, Jaworski, AL, Memedovic, S, Logge, W, Mills, K, Seear, K, Freeburn, B, Lea, T, Withall, A, Marel, C, Boffa, J, Roxburgh, A, Purcell-Khodr, G, Doyle, M, Conigrave, K, Teesson, M, Butler, K, Connor, J, Morley, KC, Haber, PS, Riordan, BC, Winter, DT, Barrett, L, Saunders, J, Hides, L, Gullo, M, Manning, V, Day, CA, Bonomo, Y, Burns, L, Assan, R, Curry, K, Mooney-Somers, J, Demirkol, A, Monds, L, McDonough, M, Baillie, AJ, Clark, P, Ritter, A, Quinn, C, Cunningham, J, Lintzeris, N, Rombouts, S, Savic, M, Norman, A, Reid, S, Hutchinson, D, Zheng, C, Iese, Y, Black, N, Draper, B, Ridley, N, Gowing, L, Stapinski, L, Taye, B, Lancaster, K, Stjepanović, D, Kay-Lambkin, F, Jamshidi, N, Lubman, D, Pastor, A, White, N, Wilson, S, Jaworski, AL, Memedovic, S, Logge, W, Mills, K, Seear, K, Freeburn, B, Lea, T, Withall, A, Marel, C, Boffa, J, Roxburgh, A, Purcell-Khodr, G, Doyle, M, Conigrave, K, Teesson, M, Butler, K, Connor, J, and Morley, KC

Abstract

Summary of recommendations and levels of evidence: Chapter 2: Screening and assessment for unhealthy alcohol use Screening Screening for unhealthy alcohol use and appropriate interventions should be implemented in general practice (Level A), hospitals (Level B), emergency departments and community health and welfare settings (Level C). Quantity–frequency measures can detect consumption that exceeds levels in the current Australian guidelines (Level B). The Alcohol Use Disorders Identification Test (AUDIT) is the most effective screening tool and is recommended for use in primary care and hospital settings. For screening in the general community, the AUDIT-C is a suitable alternative (Level A). Indirect biological markers should be used as an adjunct to screening (Level A), and direct measures of alcohol in breath and/or blood can be useful markers of recent use (Level B). Assessment Assessment should include evaluation of alcohol use and its effects, physical examination, clinical investigations and collateral history taking (Level C). Assessment for alcohol-related physical problems, mental health problems and social support should be undertaken routinely (GPP). Where there are concerns regarding the safety of the patient or others, specialist consultation is recommended (Level C). Assessment should lead to a clear, mutually acceptable treatment plan which specifies interventions to meet the patient’s needs (Level D). Sustained abstinence is the optimal outcome for most patients with alcohol dependence (Level C). Chapter 3: Caring for and managing patients with alcohol problems: interventions, treatments, relapse prevention, aftercare, and long term follow-up Brief interventions Brief motivational interviewing interventions are more effective than no treatment for people who consume alcohol at risky levels (Level A). Their effectiveness compared with standard care or alternative psychosocial interventions varies by treatment setting. They are most effective in prim

Published
2021

17. Do genome-scale models need exact solvers or clearer standards?

Author

Ebrahim, A., Almaas, E., Bauer, E., Bordbar, A., Burgard, A. P., Chang, R. L., Drager, A., Famili, I., Feist, A. M., Fleming, R. M., Fong, S. S., Hatzimanikatis, V., Herrgard, M. J., Holder, A., Hucka, M., Hyduke, D., Jamshidi, N., Lee, Sang Yup, Le Novere, N., Lerman, J. A., Lewis, Nathan, Ma, D., Mahadevan, R., Maranas, C., Nagarajan, H., Navid, A., Nielsen, Jens, Nielsen, L. K., Nogales, J., Noronha, A., Pal, C., Palsson, Bernhard, Papin, J. A., Patil, Kiran R., Price, N. D., Reed, J. L., Saunders, M., Senger, R. S., Sonnenschein, Nikolaus, Sun, Yuekai, Thiele, I., Ebrahim, A., Almaas, E., Bauer, E., Bordbar, A., Burgard, A. P., Chang, R. L., Drager, A., Famili, I., Feist, A. M., Fleming, R. M., Fong, S. S., Hatzimanikatis, V., Herrgard, M. J., Holder, A., Hucka, M., Hyduke, D., Jamshidi, N., Lee, Sang Yup, Le Novere, N., Lerman, J. A., Lewis, Nathan, Ma, D., Mahadevan, R., Maranas, C., Nagarajan, H., Navid, A., Nielsen, Jens, Nielsen, L. K., Nogales, J., Noronha, A., Pal, C., Palsson, Bernhard, Papin, J. A., Patil, Kiran R., Price, N. D., Reed, J. L., Saunders, M., Senger, R. S., Sonnenschein, Nikolaus, Sun, Yuekai, and Thiele, I.

Published
2015

18. Numerical Analysis of Flow and Heat Transfer of a Viscoelastic Fluid Over A Stretching Sheet by Using the Homotopy Analysis Method

Author

Momeni, M., Jamshidi, N., Barari, Amin, and Domairry, G.

Subjects
Homotopy Analysis Method (HAM), Second Grade Fluid, Flow Transfer, Homotopy Analysis Method, Heat Transfer, HAM, Stretching Sheet
Abstract

Purpose - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy. A clear conclusion can be drawn from the numerical method results that the HAM provides highly accurate solutions for nonlinear differential equations.Design/methodology/approach - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy.Findings - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy.Originality/value - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy. Purpose - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy. A clear conclusion can be drawn from the numerical method results that the HAM provides highly accurate solutions for nonlinear differential equations.Design/methodology/approach - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy.Findings - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy.Originality/value - In this paper a study of the flow and heat transfer of an incompressible homogeneous second grade fluid past a stretching sheet channel is presented and the Homotopy Analysis Method (HAM) is employed to compute an approximation to the solution of the system of nonlinear differential equations governing on the problem. It has been attempted to show the capabilities and wide-range applications of the Homotopy Analysis Method in comparison with the numerical method in solving this problems. The obtained solutions, in comparison with the exact solutions admit a remarkable accuracy.

Published
2011

25. A community-driven global reconstruction of human metabolism.

Author

Luxembourg Centre for Systems Biomedicine (LCSB): Experimental Neurobiology (Balling Group) [research center], Luxembourg Centre for Systems Biomedicine (LCSB): Molecular Systems Physiology (Thiele Group) [research center], Thiele, Ines(*), Swainston, N.(*), Fleming, Ronan MT, Hoppe, A., Sahoo, Swagatika, Aurich, Maike Kathrin, Haraldsdottir, Hulda, Mo, M. L., Rolfsson, O., Stobbe, M. D., Thorleifsson, S. G., Agren, R., Bölling, C., Bordel, S., Chavali, A. K., Dobson, P., Dunn, W. B., Endler, L., Hala, D., Hucka, M., Hull, D., Jameson, D., Jamshidi, N., Jonsson, J. J., Juty, N., Keating, S., Nookaew, I., Le Novère, N., Malys, N., Mazein, A., Papin, J. A., Price, N. D., Selkov, E. Sr, Sigurdsson, M. I., Simeonidis, Evangelos, Sonnenschein, N., Smallbone, K., Sorokin, A., van Beek, J. H., Weichart, D., Goryanin, I., Nielsen, J., Westerhoff, H. V., Kell, D. B., Mendes, P., Palsson, B. O., Luxembourg Centre for Systems Biomedicine (LCSB): Experimental Neurobiology (Balling Group) [research center], Luxembourg Centre for Systems Biomedicine (LCSB): Molecular Systems Physiology (Thiele Group) [research center], Thiele, Ines(*), Swainston, N.(*), Fleming, Ronan MT, Hoppe, A., Sahoo, Swagatika, Aurich, Maike Kathrin, Haraldsdottir, Hulda, Mo, M. L., Rolfsson, O., Stobbe, M. D., Thorleifsson, S. G., Agren, R., Bölling, C., Bordel, S., Chavali, A. K., Dobson, P., Dunn, W. B., Endler, L., Hala, D., Hucka, M., Hull, D., Jameson, D., Jamshidi, N., Jonsson, J. J., Juty, N., Keating, S., Nookaew, I., Le Novère, N., Malys, N., Mazein, A., Papin, J. A., Price, N. D., Selkov, E. Sr, Sigurdsson, M. I., Simeonidis, Evangelos, Sonnenschein, N., Smallbone, K., Sorokin, A., van Beek, J. H., Weichart, D., Goryanin, I., Nielsen, J., Westerhoff, H. V., Kell, D. B., Mendes, P., and Palsson, B. O.

Abstract

Multiple models of human metabolism have been reconstructed, but each represents only a subset of our knowledge. Here we describe Recon 2, a community-driven, consensus ‘metabolic reconstruction’, which is the most comprehensive representation of human metabolism that is applicable to computational modeling. Compared with its predecessors, the reconstruction has improved topological and functional features, including ~2× more reactions and ~1.7× more unique metabolites. Using Recon 2 we predicted changes in metabolite biomarkers for 49 inborn errors of metabolism with 77% accuracy when compared to experimental data. Mapping metabolomic data and drug information onto Recon 2 demonstrates its potential for integrating and analyzing diverse data types. Using protein expression data, we automatically generated a compendium of 65 cell type–specific models, providing a basis for manual curation or investigation of cell-specific metabolic properties. Recon 2 will facilitate many future biomedical studies and is freely available at http://humanmetabolism.org/.

Published
2013

39. Visible-near infrared concealment of cotton/nylon fabrics using colored pigments and multiwalled carbon nanotube particles (MWCNTs).

Author

Khajeh Mehrizi, M., Bokaei, F., and Jamshidi, N.

Subjects
VISIBLE spectra, INFRARED technology, COTTON textiles, NYLON fibers, MULTIWALLED carbon nanotubes, PARTICLE analysis
Abstract

To match the reflectance profile of desert colors including dark brown, light brown and olive green in the visible-near IR (Vis-NIR) bands, five selected colored pigments were utilized to print woven cotton/nylon fabrics. Multi-walled carbon nanotube particles (MWCNT's) were also added to some of the printing pastes. The reflectance of printed fabrics was evaluated by using spectrophotometric technique. The effect of adding MWCNT's, on washing; light and crocking fastness alongside with colorimetric values of printed samples was evaluated. Furthermore, the water absorption time was measured in order to determine wettability of each printed sample. The results demonstrated that the presence of MWCNT's in concentration range of 0.04-0.12 g kg−1 in printing formulations was found to cause considerable decline in Near Infrared (NIR) reflectance while a surprising increase in visible reflectance of samples was observed. Color characteristics of printed fabrics were noticeably changed even at concentrations as low as 0.12 g kg−1 MWCNTs in printing formulations. Presence of MWCNTs in printing formulations was found to cause a significant increase in wetting time of samples. Also, the results indicated that air permeability of printed samples containing MWCNT's were higher than samples printed with no MWCNTs. Phenomena imposed by MWCNT's presence on pigment printed samples showed very good fastness levels in crocking, washing and light fastness tests. In dark brown sample, adding MWCNTs to the pigment printing pastes could tune the overall reflectance in order to match the standard reflectance profile accepted for use in concealment color of desert areas. © 2013 Wiley Periodicals, Inc. Col Res Appl, 40, 93-98, 2015 [ABSTRACT FROM AUTHOR]

Published
2015
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40. Modelling the interaction of ankle-foot orthosis and foot by finite element methods to design an optimized sole in steppage gait.

Author

Jamshidi, N., Hanife, H., Rostami, M., Najarian, S., Menhaj, M.B., Saadatnia, M., and Salami, F.

Subjects
*GAIT disorders, *FINITE element method, *NUMERICAL analysis, *ANKLE, *CAD/CAM systems
Abstract

In this study, based on kinematics data in steppage gait, a finite element model of human gait with ankle-foot orthosis (AFO) has been proposed to optimize the role of AFO through minimizing stress in the patients' sole. The required kinetics data for the model were captured through a force plate and then analysed by 3D-DOCTOR and ANSYS software. In the proposed three-dimensional finite element model the transmitted tension in soft tissue and bones during gait was calculated. By changing the thickness and materials of different layers of sole in AFO the tension variations have been assessed. Unlike previous studies, the effect of orthosis on tension generated in bones and muscles has been dynamically and continuously modelled and the contact between AFO and sole has been considered in this model. By using the optimized sole the stress distribution has been changed by +50.38% in the forefoot, +15% in the midfoot and -37.79% in the hindfoot. The tension reduction in the sole can improve the effect of AFO during abnormal gait. It is possible to design each orthosis sole based on the kinetics data of each patient. [ABSTRACT FROM AUTHOR]

Published
2010
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44. Bone temperature reduction during drilling via alcohol: Brief report

Author

Effatparvar, M., Jamshidi, N., and Alireza Karimian

Subjects
lcsh:R5-920, alcohol, Kirschner wires, bone necrosis, lcsh:Medicine (General)
Abstract

Background: Cooling is one of the main processes in bone temperature decrement, while drilling. this experiment was conducted for examination of alcohol effect as cooler in prevention of thermal necrosis. Methods: Bovine femur bone was considered as specimen and inclusions criteria for this study were: femur bone, cortical area and without bone periosteum. Drilling process was conducted by two types of k-wire- Trocar and Diamond, three speeds and three feed rates and in the time of march, 2016 in the place of university of Isfahan, Iran. Two type of thermometer- K-thermocouple and infrared thermometer- were used for temperature measurement, and all data were logged by data logger. Drilling processes were conducted by milling machine with ability of table movement for feed rate parameter. Method of alcohol usage in cooling was in form of conducting alcoholic gauze with k-wire while rotating. Results: Totally in the cases of trocar and diamond wires, while were cooled by alcohol, the risk of bone necrosis decreased about 44.44% and 66.66%. All temperature data were logged by changing parameters. maximum temperature, 94.5 °C, belonged to trocar wire in a non-cooling condition and after usage of cooler it decreased to 75 °C. In the usage of diamond wires, the maximum temperature was recorded 71 °C and the temperature while using alcohol was 51 °C. Diamond wire had better result in both conditions of cooling and no cooling, and this is related to geometric differences between two types of wires. Conclusion: Due to obtained data from examination, utilization alcohol can have an important influence on final bone temperature decreasing. The way of using alcohol was in the style of attrition soaked gauze onto wire while insertion.

49. Dynamic simulation of the human red blood cell metabolic network.

Author

Jamshidi, N, Edwards, J S, Fahland, T, Church, G M, and Palsson, B O

Abstract

We have developed a Mathematica application package to perform dynamic simulations of the red blood cell (RBC) metabolic network. The package relies on, and integrates, many years of mathematical modeling and biochemical work on red blood cell metabolism. The extensive data regarding the red blood cell metabolic network and the previous kinetic analysis of all the individual components makes the human RBC an ideal 'model' system for mathematical metabolic models. The Mathematica package can be used to understand the dynamics and regulatory characteristics of the red blood cell.

Published
2001
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