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High-throughput and intelligent design of potential GRK2 inhibitor candidates using deep learning and mathematical programming methods
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作者 Yujing Zhao Qilei Liu +3 位作者 Jian Du Qingwei Meng Liang Sun Lei Zhang 《Chinese Journal of Chemical Engineering》 2025年第8期11-22,共12页
G protein coupled receptor kinase 2 (GRK2) is a kinase that regulates cardiac signaling activity. Inhibiting GRK2 is a promising mechanism for the treatment of heart failure (HF). Further development and optimization ... G protein coupled receptor kinase 2 (GRK2) is a kinase that regulates cardiac signaling activity. Inhibiting GRK2 is a promising mechanism for the treatment of heart failure (HF). Further development and optimization of inhibitors targeting GRK2 are highly meaningful. Therefore, in order to design GRK2 inhibitors with better performance, the most active molecule was selected as a reference compound from a data set containing 4-pyridylhydrazone derivatives and triazole derivatives, and its scaffold was extracted as the initial scaffold. Then, a powerful optimization-based framework for de novo drug design, guided by binding affinity, was used to generate a virtual molecular library targeting GRK2. The binding affinity of each virtual compound in this dataset was predicted by our developed deep learning model, and the designed potential compound with high binding affinity was selected for molecular docking and molecular dynamics simulation. It was found that the designed potential molecule binds to the ATP site of GRK2, which consists of key amino acids including Arg199, Gly200, Phe202, Val205, Lys220, Met274 and Asp335. The scaffold of the molecule is stabilized mainly by H-bonding and hydrophobic contacts. Concurrently, the reference compound in the dataset was also simulated by docking. It was found that this molecule also binds to the ATP site of GRK2. In addition, its scaffold is stabilized mainly by H-bonding and π-cation stacking interactions with Lys220, as well as hydrophobic contacts. The above results show that the designed potential molecule has similar binding modes to the reference compound, supporting the effectiveness of our framework for activity-focused molecular design. Finally, we summarized the interaction characteristics of general GRK2 inhibitors and gained insight into their molecule-target binding mechanisms, thereby facilitating the expansion of lead to hit compound. 展开更多
关键词 mathematical modeling Optimal design Product design GRK2 mathematical programmingmethod Binding affinity
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Computer-based Creativity Enhanced Conceptual Design Model for Non-routine Design of Mechanical Systems 被引量:5
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作者 LI Yutong WANG Yuxin DUFFY Alex H B 《Chinese Journal of Mechanical Engineering》 SCIE EI CAS CSCD 2014年第6期1083-1098,共16页
Computer-based conceptual design for routine design has made great strides, yet non-routine design has not been given due attention, and it is still poorly automated. Considering that the function-behavior-structure(... Computer-based conceptual design for routine design has made great strides, yet non-routine design has not been given due attention, and it is still poorly automated. Considering that the function-behavior-structure(FBS) model is widely used for modeling the conceptual design process, a computer-based creativity enhanced conceptual design model(CECD) for non-routine design of mechanical systems is presented. In the model, the leaf functions in the FBS model are decomposed into and represented with fine-grain basic operation actions(BOA), and the corresponding BOA set in the function domain is then constructed. Choosing building blocks from the database, and expressing their multiple functions with BOAs, the BOA set in the structure domain is formed. Through rule-based dynamic partition of the BOA set in the function domain, many variants of regenerated functional schemes are generated. For enhancing the capability to introduce new design variables into the conceptual design process, and dig out more innovative physical structure schemes, the indirect function-structure matching strategy based on reconstructing the combined structure schemes is adopted. By adjusting the tightness of the partition rules and the granularity of the divided BOA subsets, and making full use of the main function and secondary functions of each basic structure in the process of reconstructing of the physical structures, new design variables and variants are introduced into the physical structure scheme reconstructing process, and a great number of simpler physical structure schemes to accomplish the overall function organically are figured out. The creativity enhanced conceptual design model presented has a dominant capability in introducing new deign variables in function domain and digging out simpler physical structures to accomplish the overall function, therefore it can be utilized to solve non-routine conceptual design problem. 展开更多
关键词 conceptual design non-routine design creative enhance model computer-based approach mathematical expression
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A Custom Manipulator for Dental Implantation Through Model-Based Design 被引量:2
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作者 Anitha Govindhan Karnam Anantha Sunitha Sivanathan Kandhasamy 《Intelligent Automation & Soft Computing》 SCIE 2023年第1期351-365,共15页
This paper presents a Model-Based Design(MBD)approach for the design and control of a customized manipulator intended for drilling and position-ing of dental implants accurately with minimal human intervention.While p... This paper presents a Model-Based Design(MBD)approach for the design and control of a customized manipulator intended for drilling and position-ing of dental implants accurately with minimal human intervention.While performing an intra-oral surgery for a prolonged duration within a limited oral cavity,the tremor of dentist's hand is inevitable.As a result,wielding the drilling tool and inserting the dental implants safely in accurate position and orientation is highly challenging even for experienced dentists.Therefore,we introduce a customized manipulator that is designed ergonomically by taking in to account the dental chair specifications and anthropomorphic data such that it can be readily mounted onto the existing dental chair.The manipulator can be used to drill holes for dental inserts and position them with improved accuracy and safety.Further-more,a thorough multi-body motion analysis of the manipulator was carried out by creating a virtual prototype of the manipulator and simulating its controlled movements in various scenarios.The overall design was prepared and validated in simulation using Solid works,MATLAB and Simulink through Model Based Design(MBD)approach.The motion simulation results indicate that the manipulator could be built as a prototype readily. 展开更多
关键词 model based design multi-body motion simulation custom manipulator orthodontic implants mathematical approach
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Application of the theory of linear algebra on mathematical modeling practice 被引量:1
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作者 Jing Wan 《International Journal of Technology Management》 2013年第12期83-85,共3页
The application level of mathematics in each science discipline signs the level of development of this science. With the advancement of science and technology, especially the rapid development of computer technology, ... The application level of mathematics in each science discipline signs the level of development of this science. With the advancement of science and technology, especially the rapid development of computer technology, mathematics has permeated from natural scientific technology to agricultural construction, from economic activities to all areas of social life. Generally, when the actual problem requires us to provide quantitative results of analysis, forecasting, decision making, control and other aspects for real object under study, we are often inseparable from the application of mathematics. Mathematical modeling is the key to this process, whose purpose is to make mathematics applied to social and social services, and using mathematics to solve practical problems is through mathematical models. When using mathematical methods to solve some practical problems, we usually first transfer practical problems into mathematical language, and then abstract them into a mathematical model. 展开更多
关键词 linear algebra mathematical modeling practice functional design
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Decoding of Factorial Experimental Design Models Implemented in Production Process
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作者 Borislav Savkovic Pavel Kovac +1 位作者 Branislav Dudic Michal Gregus 《Computers, Materials & Continua》 SCIE EI 2022年第4期1661-1675,共15页
The paper deals with factorial experimental design models decoding.For the ease of calculation of the experimental mathematical models,it is convenient first to code the independent variables.When selecting independen... The paper deals with factorial experimental design models decoding.For the ease of calculation of the experimental mathematical models,it is convenient first to code the independent variables.When selecting independent variables,it is necessary to take into account the range covered by each.A wide range of choices of different variables is presented in this paper.After calculating the regression model,its variables must be returned to their original values for the model to be easy recognized and represented.In the paper,the procedures of simple first order models,with interactions and with second order models,are presented,which could be a very complicated process.Models without and with the mutual influence of independent variables differ.The encoding and decoding procedure on a model with two independent first-order parameters is presented in details.Also,the procedure of model decoding is presented in the experimental surface roughness parameters models’determination,in the face milling machining process,using the first and second order model central compositional experimental design.The simple calculation procedure is recommended in the case study.Also,a large number of examples using mathematical models obtained on the basis of the presented methodology are presented throughout the paper. 展开更多
关键词 mathematical modeling design of experiments FUNCTIONS CODING DECODING VARIABLE regression coefficienta
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A Multidisciplinary Design Optimization Model for AUV Synthetic Conceptual Design 被引量:1
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作者 卜广志 张宇文 《Defence Technology(防务技术)》 SCIE EI CAS 2006年第4期257-261,共5页
Autonomous undersea vehicle (AUV) is a typical complex engineering system. This paper studies the disciplines and coupled variables in AUV design with multidisciplinary design optimization (MDO) methods. The framework... Autonomous undersea vehicle (AUV) is a typical complex engineering system. This paper studies the disciplines and coupled variables in AUV design with multidisciplinary design optimization (MDO) methods. The framework of AUV synthetic conceptual design is described first, and then a model with collaborative optimization is studied. At last, an example is given to verify the validity and efficiency of MDO in AUV synthetic conceptual design. 展开更多
关键词 自主潜水器 多学科设计 优化模型 合成概念设计 AUV
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Model-Based Control Design Using SLPS "Simulink PSpice Interface" 被引量:1
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作者 Saied Moslehpour Ercan K. Kulcu Hisham Alnajjar 《通讯和计算机(中英文版)》 2010年第5期68-77,共10页
关键词 SIMULINK模型 PSPICE 控制设计 基于模型 SLP 程序接口 仿真模拟器 MATLAB
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Design-Expert在磨矿试验设计及参数优化中的应用 被引量:7
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作者 王泽红 孔令斌 程旭 《金属矿山》 CAS 北大核心 2014年第5期110-113,共4页
为了在较小的试验工作量情况下取得可信度高的磨机利用系数与介质充填率、料球比和磨矿时间关系的数学模型,采用Design-Expert 8.0软件对磨矿试验方案进行设计,并对试验结果进行模型拟合和试验验证。结果表明:单因素对磨机利用系数影响... 为了在较小的试验工作量情况下取得可信度高的磨机利用系数与介质充填率、料球比和磨矿时间关系的数学模型,采用Design-Expert 8.0软件对磨矿试验方案进行设计,并对试验结果进行模型拟合和试验验证。结果表明:单因素对磨机利用系数影响的强弱顺序为料球比>介质充填率>磨矿时间,交互作用对磨机利用系数影响的强弱顺序为介质充填率与料球比>料球比与磨矿时间>介质充填率与磨矿时间。在介质充填率取35.79%、料球比取1.12、磨矿时间取42.09 min情况下,磨机利用系数取得最大值,预测值达0.298 t/(m3·h)。Design-Expert 8.0软件推荐的几组优秀参数组合所对应的磨机利用系数预测值与验证试验结果非常接近,说明Design-Expert 8.0软件可以快速、高效、准确地对磨矿试验方案进行设计和参数优化。 展开更多
关键词 design-Expert 8 0 充填率 料球比 磨矿时间 数学模型
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On Software Application Database Constraint-driven Design and Development
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作者 Christian Mancas Cristina Serban Diana Christina Mancas 《Journal of Computer Science Research》 2023年第1期31-45,共15页
This paper presents a methodology driven by database constraints for designing and developing(database)software applications.Much needed and with excellent results,this paradigm guarantees the highest possible quality... This paper presents a methodology driven by database constraints for designing and developing(database)software applications.Much needed and with excellent results,this paradigm guarantees the highest possible quality of the managed data.The proposed methodology is illustrated with an easy to understand,yet complex medium-sized genealogy software application driven by more than 200 database constraints,which fully meets such expectations. 展开更多
关键词 Database constraint-driven design and development Database constraint Data plausibility Software architecture design and development The(elementary)mathematical data model MatBase
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Design and optimization of a novel electrically controlled high pressure fuel injection system for heavy fuel aircraft piston engine 被引量:8
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作者 Ke ZHANG Xudong HUANG +1 位作者 Zhifeng XIE Ming ZHOU 《Chinese Journal of Aeronautics》 SCIE EI CAS CSCD 2018年第9期1920-1928,共9页
The heavy fuel compression ignition engines are widely equipped as aircraft piston engines. The fuel injection system is one of the key technologies that determines the performance of engine. One of the main challenge... The heavy fuel compression ignition engines are widely equipped as aircraft piston engines. The fuel injection system is one of the key technologies that determines the performance of engine. One of the main challenges is to precisely control the injected fuel quantity and flow rate in the presence of pressure fluctuation. This challenge is even more serious for heavy fuel. An original design for electrically controlled high pressure fuel injection system called Multi-Pumppressure-reservoirs fuel injection System(MPS) was demonstrated to reduce the pressure fluctuation and help keep injection stable. MPS was compared with an ordinary high pressure Common Rail fuel injection System(CRS). This work established one-dimensional AMESim and mathematical models for both CRS and MPS to study the effect of different structures and geometric parameters on the pressure fluctuations. The calculations show that the average fuel pressure fluctuation of MPS can be reduced by 57% for the crankshaft speed of 1900 r/min, and the pressure fluctuation before injection reduced by 100%. It is concluded that the pressure performance of MPS is less sensitive to pressure reservoir volume than that of CRS, and there is an opportunity for further volume reduction. 展开更多
关键词 Aircraft engines AMESIM Common rail Fuel injection mathematical models Pressure effects Structural design
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Column envelope meshing pair and its design method for single screw compressors 被引量:3
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作者 Wei-feng WU Quan-ke FENG 《Journal of Zhejiang University-Science A(Applied Physics & Engineering)》 SCIE EI CAS CSCD 2009年第1期31-36,共6页
A single screw compressor (SSC) is an important component found in many refrigeration systems.However,the durability is not so good because of the friction between its meshing pair.Therefore the column envelope meshin... A single screw compressor (SSC) is an important component found in many refrigeration systems.However,the durability is not so good because of the friction between its meshing pair.Therefore the column envelope meshing pair was pro-posed to prolong the operating life of SSCs,although it has not been applied to commercial refrigeration systems.To accelerate the industrial application,a mathematical model for analyzing the column envelope meshing pair is established based on the geometry and kinematics.Equations giving the flanks of column envelope grooves are obtained,and teeth flank meshing with the groove is designed.Results show that this model could be applicable in the design of the column envelope type SSC. 展开更多
关键词 Column envelope Single screw compressor (SSC) Meshing pair design mathematical model
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Simulation and Design Optimization of Ammonia Synthesis Converter 被引量:1
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作者 叶启亮 应卫勇 房鼎业 《Chinese Journal of Chemical Engineering》 SCIE EI CAS CSCD 2001年第4期441-446,共6页
One-dimensional pseudo-homogeneous model of an axial flow converter and one-dimensional heteroge-neous model of a horizontal converter have been presented, which describe the distribution of gaseous composition,temper... One-dimensional pseudo-homogeneous model of an axial flow converter and one-dimensional heteroge-neous model of a horizontal converter have been presented, which describe the distribution of gaseous composition,temperature and pressure along the height in the two converters, respectively. Design optimization methods of the two converters have been proposed, by which the minimum catalyst volume can be obtained to satisfy the productive capacity of 1000 tons per day, when the operating pressure is 15.0, 10.0 and 7.5 MPa, respectively. 展开更多
关键词 ammonia synthesis axial flow converter horizontal converter mathematical model design optimiza-tion
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Mathematics and Computer Graphic Design Arts
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作者 Xu Yafei(徐亚非) 《Journal of Donghua University(English Edition)》 EI CAS 2001年第1期127-129,共3页
The relationship between arts and mathematics is very close, computer graphic design is based on digital methodology. The paper reveals the mathematical backgrounds behind graphic design by the example of computer-aid... The relationship between arts and mathematics is very close, computer graphic design is based on digital methodology. The paper reveals the mathematical backgrounds behind graphic design by the example of computer-aided cubic modeling and mathematical exchange methodology. Furthermore, one can get incredible artistic effects if computer graphic designers pay more attention to the probability and use probable numbers and fractal operation in their design activities.Finally, the author also discusses the bidirections between arts and mathematics. 展开更多
关键词 computer GRAPHIC design ARTS and mathematics cubic modeling MATHEMATICS operation FRACTAL theory application design evaluation.
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THE APPLICATION OF THE COMPUTER AIDED ANALYSIS IN THE DESIGN OF COALMINE MACHINERY LINKAGES
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作者 寇子明 许步勤 沈现军 《Journal of Coal Science & Engineering(China)》 1996年第1期98-104,共7页
This paper gives and verifies a mathematical model with only one argument which determines the movement parameters of any point in a plane four-bar linkage on the basis of the analysis of mining machinery linkages. C ... This paper gives and verifies a mathematical model with only one argument which determines the movement parameters of any point in a plane four-bar linkage on the basis of the analysis of mining machinery linkages. C A A (computer aided analysis) based on the mathemetical model can be used to make not only the quick and accurate analysis and design of mining machinery linkages but also the movement analysis and optimization design of any other plane four-bar linkage. 展开更多
关键词 linkage mechanism mathematical model computer aided design mining machinery
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An Ethical Approach to Decision Design
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作者 Marion G. Ben-Jacob 《Open Journal of Applied Sciences》 2021年第6期665-671,共7页
This paper describes an approach to ethical decision design. It discusses the use of several mathematical tools applicable to the world of economics and business. It then demonstrates how the tools analogously extend ... This paper describes an approach to ethical decision design. It discusses the use of several mathematical tools applicable to the world of economics and business. It then demonstrates how the tools analogously extend themselves to making ethical decisions as supported by personal values. A review of the mathematics, including the design of a decision tree, the concept of mathematical expectation, and mathematical modeling are included. 展开更多
关键词 design ETHICS BUSINESS Decision Trees Expected Value mathematical models
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Research on Key Techniques of Collaborative Design System
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作者 李祥 Zhou +2 位作者 Xonghui Ruan Xueyu 《High Technology Letters》 EI CAS 2001年第2期51-53,共3页
The development of product is a complex process. Collaboration is necessary to this process to support multi-function teams’ participation in this process at the same time. Effective task decomposition is the prerequ... The development of product is a complex process. Collaboration is necessary to this process to support multi-function teams’ participation in this process at the same time. Effective task decomposition is the prerequisite of collaborative design and constraint network was used to express the relationship among design participants. In order to make the coupling collaborative design go smoothly, a constraint satisfaction model based on dynamic constraint is put forward. An integrated-based conflict resolution model is advanced to resolve the complex conflict during the process of collaborative design. 展开更多
关键词 Collaborative design Constraint network Dynamic constraint Conflict resolution Integrated-based
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Application of particle swarm optimization algorithm in bellow optimum design
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作者 YU Ying Zhu Qing-nan +1 位作者 YU Xiao-Chun LI Yong-Sheng 《通讯和计算机(中英文版)》 2007年第7期50-56,共7页
关键词 最优化设计 颗粒群最优化算法 应用 数学模型 间断永续性 全球最优化
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Optimization Mathematical Model of Pile Forces for Offshore Piled Breasting Dolphins 被引量:1
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作者 周锡礽 王乐芹 +1 位作者 王晖 朱福明 《海洋工程:英文版》 EI 2004年第4期567-575,共9页
An optimization mathematical model of the pile forces for piled breasting dolphins in the open sea under various loading conditions is presented. The optimum layout with the well distributed pile forces and the least ... An optimization mathematical model of the pile forces for piled breasting dolphins in the open sea under various loading conditions is presented. The optimum layout with the well distributed pile forces and the least number of piles is achieved by the multiplier penalty function method. Several engineering cases have been calculated and compared with the result of the conventional design method. It is shown that the number of piles can be reduced at least by 10%~20% and the piles' bearing state is improved greatly. 展开更多
关键词 piled breasting dolphin mathematical model multiplier penalty function method optimization design
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MODELING AND CONTROL DESIGN OF AN ANGUILLIFORM ROBOTIC FISH
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作者 JIAN-XIN XU XUE-LEI NIU QIN-YUAN REN 《International Journal of Modeling, Simulation, and Scientific Computing》 EI 2012年第4期91-114,共24页
In this paper,the modeling and control design of a biomimetic robotic fish is presented.The Anguilliform robotic fish consists of N links and N−1 joints,and the driving forces are the torques applied to the joints.Con... In this paper,the modeling and control design of a biomimetic robotic fish is presented.The Anguilliform robotic fish consists of N links and N−1 joints,and the driving forces are the torques applied to the joints.Considering kinematic constraints,Lagrangian formulation is used to obtain the dynamics of the fish model.The computed torque control method is applied first,which can provide satisfactory tracking responses for fish joints.Since this robotic fish is essentially an underactuated system,the reference trajectories for the orientation of the N links are planned in such a way that,at a neighborhood of the equilibrium point,the tracking task of N angles can be achieved by using N−1 joint torques.To deal with parameter uncertainties that exist in the actual environment,sliding mode control is adopted.Considering feasibility and complexity issues,a simplified sliding mode control algorithm is given.A four-link robotic fish is modeled and simulated,and the results validate the effectiveness of reference planning and the proposed controllers. 展开更多
关键词 Biomimetic robotic fish control algorithm design mathematical model.
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Application of defin让ive screening design to quantify the effects of process parameters on key granule characteristics and optimize operating parameters in pulsed-spray fluid-bed granulation 被引量:10
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作者 Jie Zhao Wenlong Li +2 位作者 Haibin Qu Geng Tian Yanding Wei 《Particuology》 SCIE EI CAS CSCD 2019年第2期56-65,共10页
The pulsed-spray fluid-bed granulation (PSFBG) process was investigated and optimized using definitive scree ning design, a recently proposed new class of three-level desig n of experiment method. Such a design enable... The pulsed-spray fluid-bed granulation (PSFBG) process was investigated and optimized using definitive scree ning design, a recently proposed new class of three-level desig n of experiment method. Such a design enabled quadratic models to be established that described the effect of six in put process parameters - inlet air temperature, inlet air humidity, binder spray rate, atomization pressure, pulse period, and pulse width - on the granule quality in a PSFBG process. Mathematical models of the mean particle size, relative size distribution width, production yield, and porosity were developed to quantify the relationships between the in flue ncing factors and critical quality attributes. On the basis of con strai nts on the desired granule properties, a design space for PSFBG was determined and ranges of the operating parameters were defined. An acceptable degree of prediction was confirmed by validation experiments, demonstrating the reliability and effectiveness of using definitive screening design to study the PSFBG process. This method can accelerate screening and optimization of this process within a large multidimensional design space. 展开更多
关键词 Pulsed-spray fluid-bed granuiation design of experiment Definitive SCREENING design mathematical models design space Process parameters
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