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Binary Classification of the Endocrine Disrupting Chemicals by Artificial Neural Networks. 人工神经网络对干扰内分泌的化学品进行二元分类。
Pub Date : 2023-01-01 Epub Date: 2023-07-18 DOI: 10.1016/b978-0-443-15274-0.50418-2
Zahir Aghayev, George F Walker, Funda Iseri, Moustafa Ali, Adam T Szafran, Fabio Stossi, Michael A Mancini, Efstratios N Pistikopoulos, Burcu Beykal

We develop a machine learning framework that integrates high content/high throughput image analysis and artificial neural networks (ANNs) to model the separation between chemical compounds based on their estrogenic receptor activity. Natural and man-made chemicals have the potential to disrupt the endocrine system by interfering with hormone actions in people and wildlife. Although numerous studies have revealed new knowledge on the mechanism through which these compounds interfere with various hormone receptors, it is still a very challenging task to comprehensively evaluate the endocrine disrupting potential of all existing chemicals and their mixtures by pure in vitro or in vivo approaches. Machine learning offers a unique advantage in the rapid evaluation of chemical toxicity through learning the underlying patterns in the experimental biological activity data. Motivated by this, we train and test ANN classifiers for modeling the activity of estrogen receptor-α agonists and antagonists at the single-cell level by using high throughput/high content microscopy descriptors. Our framework preprocesses the experimental data by cleaning, scaling, and feature engineering where only the middle 50% of the values from each sample with detectable receptor-DNA binding is considered in the dataset. Principal component analysis is also used to minimize the effects of experimental noise in modeling where these projected features are used in classification model building. The results show that our ANN-based nonlinear data-driven framework classifies the benchmark agonist and antagonist chemicals with 98.41% accuracy.

我们开发了一种机器学习框架,将高含量/高通量图像分析与人工神经网络(ANN)相结合,根据雌激素受体的活性来模拟化学物质之间的分离。天然和人造化学物质有可能干扰人和野生动物体内的激素作用,从而扰乱内分泌系统。尽管大量研究揭示了这些化合物干扰各种激素受体的新机制,但要通过纯体外或体内方法全面评估所有现有化学品及其混合物的内分泌干扰潜力,仍然是一项极具挑战性的任务。通过学习实验生物活性数据中的基本模式,机器学习在快速评估化学品毒性方面具有独特的优势。受此启发,我们利用高通量/高含量显微镜描述符训练和测试了 ANN 分类器,用于在单细胞水平上模拟雌激素受体-α 激动剂和拮抗剂的活性。我们的框架通过清洗、缩放和特征工程对实验数据进行预处理,数据集中只考虑每个样本中可检测到受体-DNA 结合的中间 50% 值。在建模过程中,还使用了主成分分析来尽量减少实验噪声的影响,这些预测特征将用于分类模型的建立。结果表明,我们基于 ANN 的非线性数据驱动框架对基准激动剂和拮抗剂化学物质进行分类的准确率为 98.41%。
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引用次数: 0
Continuous-Time Surrogate Models for Data-Driven Dynamic Optimization. 数据驱动动态优化的连续时间代理模型。
Pub Date : 2022-01-01 DOI: 10.1016/b978-0-323-95879-0.50035-7
Burcu Beykal, Nikolaos A Diangelakis, Efstratios N Pistikopoulos

This work addresses the control optimization of time-varying systems without the full discretization of the underlying high-fidelity models and derives optimal control trajectories using surrogate modeling and data-driven optimization. Time-varying systems are ubiquitous in the chemical process industry and their systematic control is essential for ensuring each system to be operated at the desired settings. To this end, we postulate nonlinear continuous-time control action trajectories using time-varying surrogate models and derive the parameters of these functional forms using data-driven optimization. Data-driven optimization allows us to collect data from the high-fidelity model without pursuing any discretization and fine-tune candidate control trajectories based on the retrieved input-output information from the nonlinear system. We test exponential and polynomial surrogate forms for the control trajectories and explore various data-driven optimization strategies (local vs. global and sample-based vs. model-based) to test the consistency of each approach for controlling dynamic systems. The applicability of our approach is demonstrated on a motivating example and a CSTR control case study with favorable results.

这项工作解决了时变系统的控制优化,而没有完全离散化潜在的高保真模型,并使用代理建模和数据驱动优化导出最优控制轨迹。时变系统在化学过程工业中无处不在,它们的系统控制对于确保每个系统在期望的设置下运行至关重要。为此,我们使用时变代理模型假设非线性连续时间控制动作轨迹,并使用数据驱动优化推导这些函数形式的参数。数据驱动优化使我们能够从高保真模型中收集数据,而无需进行任何离散化,并根据从非线性系统中检索到的输入-输出信息微调候选控制轨迹。我们测试了控制轨迹的指数和多项式代理形式,并探索了各种数据驱动的优化策略(局部vs全局,基于样本vs基于模型),以测试每种方法控制动态系统的一致性。我们的方法的适用性在一个激励的例子和CSTR控制案例研究中得到了良好的结果。
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引用次数: 1
Development of a Virtual Sensor for Real-Time Prediction of Granule Flow Properties. 实时预测颗粒流动特性的虚拟传感器的研制。
Pub Date : 2022-01-01 DOI: 10.1016/b978-0-323-95879-0.50181-8
Rexonni B Lagare, Mariana Araujo da Conceicao, Ariana Camille Acevedo Rosario, Katherine Leigh Young, Yan-Shu Huang, M Ziyan Sheriff, Clairmont Clementson, Paul Mort, Zoltan Nagy, Gintaras V Reklaitis

We report progress of an ongoing work to develop a virtual sensor for flowability, which is a critical tool for enabling real time process monitoring in a granulation line. The sensor is based on camera imaging to measure the size and shape distribution of granules produced by wet granulation. Then, statistical methods were used to correlate them with flowability measurements such as ring shear tests, drained angle of repose, dynamic angle of repose, and tapped density. The virtual sensor addresses the issue with these flowability measurements, which are based on off-line characterization methods that can take hours to perform. With a virtual sensor based on real-time measurement methods, the prediction of granule flowability become faster, allowing for timely decisions regarding process control and the supply chain.

我们报告了一项正在进行的开发流动性虚拟传感器的工作进展,这是实现造粒线实时过程监控的关键工具。该传感器基于相机成像来测量湿造粒产生的颗粒的大小和形状分布。然后,使用统计方法将其与流动性测量(如环剪试验、排水休止角、动态休止角和攻丝密度)相关联。虚拟传感器解决了流动性测量的问题,这些测量基于离线表征方法,可能需要数小时才能完成。通过基于实时测量方法的虚拟传感器,颗粒流动性的预测变得更快,从而可以及时做出有关过程控制和供应链的决策。
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引用次数: 2
Development of mechanistic reduced order models (ROMs)for glidant and lubricant effects in continuous manufacturing of pharmaceutical solid-dosage forms. 针对药物固体制剂连续生产过程中的滑剂和润滑剂效应,开发机械还原阶次模型 (ROM)。
Pub Date : 2022-01-01 DOI: 10.1016/b978-0-323-95879-0.50189-2
Sunidhi Bachawala, Marcial Gonzalez

As the pharmaceutical industry transitions from batch to continuous manufacturing, real-time monitoring, and mechanistic model-based control are essential to conform to FDA quality standards. Glidants and lubricants are known to affect the Critical Quality Attributes (CQAs) of a tablet such as tensile strength, tablet porosity, and dissolution profile (Razavi et al., 2018; Apeji and Olowosulu, 2020). Quantitative models for predicting these effects are essential for enabling centralized control strategies of lubricant and glidant feeding and blending in direct compression tableting lines. This work presents the development of mechanistic reduced order models to capture the effects of lubricant (magnesium stearate) and glidant (silica) on CQAs and Critical Process Parameters (CPPs). A Latin Hypercube experimental campaign with thirty different mixing conditions of silica with MCC (Avicel PH200) and APAP (Acetaminophen) was carried out using a Natoli NP400 tablet press and a SOTAX AT4 tablet tester. Experiments show that the tensile strength and blend bulk density are significantly affected by the mixing conditions of silica. Similarly, adding magnesium stearate (MgSt) changes the bulk density of the blend, compaction force required to form a tablet, and tensile strength of the tablet, depending on the lubrication conditions (Mehrotra et al., 2007; Razavi et al., 2018).

随着制药业从批量生产向连续生产过渡,实时监控和基于机械模型的控制对于符合美国食品及药物管理局的质量标准至关重要。众所周知,滑润剂和润滑剂会影响片剂的关键质量属性(CQAs),如拉伸强度、片剂孔隙率和溶出曲线(Razavi 等人,2018 年;Apeji 和 Olowosulu,2020 年)。预测这些影响的定量模型对于在直接压片生产线中实现润滑剂和滑润剂喂料与混合的集中控制策略至关重要。这项工作介绍了减阶机械模型的开发情况,以捕捉润滑剂(硬脂酸镁)和滑胶剂(二氧化硅)对 CQAs 和关键工艺参数 (CPP) 的影响。使用 Natoli NP400 压片机和 SOTAX AT4 片剂测试仪,对白炭黑与 MCC(Avicel PH200)和 APAP(对乙酰氨基酚)进行了 30 种不同混合条件的拉丁超立方实验。实验表明,白炭黑的混合条件对拉伸强度和混合体积密度有很大影响。同样,添加硬脂酸镁(MgSt)会改变混合物的体积密度、形成片剂所需的压实力以及片剂的抗张强度,具体取决于润滑条件(Mehrotra 等人,2007 年;Razavi 等人,2018 年)。
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引用次数: 0
A Hierarchical Approach to Monitoring Control Performance and Plant-Model Mismatch. 监控控制性能和工厂模型不匹配的分层方法。
Pub Date : 2022-01-01 DOI: 10.1016/b978-0-323-95879-0.50182-x
M Ziyan Sheriff, Yan-Shu Huang, Sunidhi Bachawala, Marcial Gonzelez, Zoltan K Nagy, Gintaras V Reklaitis

Controllers are often tuned during plant commissioning, with a fixed process model. However, over time degradation can occur in the process, the process model and the controller, making it necessary to either re-tune the controller or re-identify the process model. Authors have proposed a variety of approaches to identify plant-model mismatch (PMM) and control performance degradation (CPD). While each approach may have its own advantages and disadvantages, they are generally designed to function on different timescales. The differing timescales result in the need for a multi-level hierarchical approach to monitor, detect, and manage PMM and CPD, as illustrated through a continuous pharmaceutical manufacturing application, i.e., a direct compression tablet manufacturing process. This work also highlights the requirement for index-based metrics, that enable the impact of PMM and CPD to be quantified and assessed from a control performance monitoring perspective, to aid fault diagnosis through root cause analysis to guide maintenance decisions for continuous manufacturing applications.

控制器通常是在工厂调试期间根据固定的工艺模型进行调整的。然而,随着时间的推移,过程、过程模型和控制器都可能发生退化,因此有必要重新调整控制器或重新识别过程模型。学者们提出了多种方法来识别工厂-模型不匹配(PMM)和控制性能退化(CPD)。虽然每种方法都有其自身的优缺点,但它们一般都是针对不同的时间尺度而设计的。不同的时间尺度导致需要一种多层次的分级方法来监控、检测和管理 PMM 和 CPD,这一点可以通过连续制药应用(即直接压片生产流程)来说明。这项工作还强调了对基于指数的指标的需求,这些指标能够从控制性能监测的角度量化和评估 PMM 和 CPD 的影响,通过根本原因分析帮助故障诊断,从而为连续生产应用的维护决策提供指导。
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引用次数: 0
Predicting the Estrogen Receptor Activity of Environmental Chemicals by Single-Cell Image Analysis and Data-driven Modeling. 利用单细胞图像分析和数据驱动模型预测环境化学物质雌激素受体活性。
Pub Date : 2021-01-01 Epub Date: 2021-07-18 DOI: 10.1016/b978-0-323-88506-5.50076-0
Hari S Ganesh, Burcu Beykal, Adam T Szafran, Fabio Stossi, Lan Zhou, Michael A Mancini, Efstratios N Pistikopoulos

A comprehensive evaluation of toxic chemicals and understanding their potential harm to human physiology is vital in mitigating their adverse effects following exposure from environmental emergencies. In this work, we develop data-driven classification models to facilitate rapid decision making in such catastrophic events and predict the estrogenic activity of environmental toxicants as estrogen receptor-α (ERα) agonists or antagonists. By combining high-content analysis, big-data analytics, and machine learning algorithms, we demonstrate that highly accurate classifiers can be constructed for evaluating the estrogenic potential of many chemicals. We follow a rigorous, high throughput microscopy-based high-content analysis pipeline to measure the single cell-level response of benchmark compounds with known in vivo effects on the ERα pathway. The resulting high-dimensional dataset is then pre-processed by fitting a non-central gamma probability distribution function to each feature, compound, and concentration. The characteristic parameters of the distribution, which represent the mean and the shape of the distribution, are used as features for the classification analysis via Random Forest (RF) and Support Vector Machine (SVM) algorithms. The results show that the SVM classifier can predict the estrogenic potential of benchmark chemicals with higher accuracy than the RF algorithm, which misclassifies two antagonist compounds.

全面评估有毒化学品并了解其对人体生理的潜在危害,对于减轻其在环境紧急情况下暴露后的不利影响至关重要。在这项工作中,我们开发了数据驱动的分类模型,以促进在此类灾难性事件中的快速决策,并预测雌激素受体-α (ERα)激动剂或拮抗剂等环境毒物的雌激素活性。通过结合高含量分析、大数据分析和机器学习算法,我们证明了可以构建高度准确的分类器来评估许多化学物质的雌激素潜力。我们遵循严格的,基于高通量显微镜的高含量分析管道来测量具有已知ERα途径体内效应的基准化合物的单细胞水平响应。然后通过对每个特征、化合物和浓度拟合非中心伽马概率分布函数来预处理所得的高维数据集。通过随机森林(Random Forest, RF)和支持向量机(Support Vector Machine, SVM)算法,将代表均值和分布形状的分布特征参数作为特征进行分类分析。结果表明,SVM分类器预测基准化学物质的雌激素潜能的准确率高于RF算法,而RF算法对两种拮抗剂化合物进行了错误分类。
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引用次数: 0
Bi-level Mixed-Integer Data-Driven Optimization of Integrated Planning and Scheduling Problems. 综合规划调度问题的双级混合整数数据驱动优化。
Pub Date : 2021-01-01 Epub Date: 2021-07-18 DOI: 10.1016/b978-0-323-88506-5.50265-5
Burcu Beykal, Styliani Avraamidou, Efstratios N Pistikopoulos

Supply chain management is an interconnected problem that requires the coordination of various decisions and elements across long-term (i.e., supply chain structure), medium-term (i.e., production planning), and short-term (i.e., production scheduling) operations. Traditionally, decision-making strategies for such problems follow a sequential approach where longer-term decisions are made first and implemented at lower levels, accordingly. However, there are shared variables across different decision layers of the supply chain that are dictating the feasibility and optimality of the overall supply chain performance. Multi-level programming offers a holistic approach that explicitly accounts for this inherent hierarchy and interconnectivity between supply chain elements, however, requires more rigorous solution strategies as they are strongly NP-hard. In this work, we use the DOMINO framework, a data-driven optimization algorithm initially developed to solve single-leader single-follower bi-level mixed-integer optimization problems, and further develop it to address integrated planning and scheduling formulations with multiple follower lower-level problems, which has not received extensive attention in the open literature. By sampling for the production targets over a pre-specified planning horizon, DOMINO deterministically solves the scheduling problem at each planning period per sample, while accounting for the total cost of planning, inventories, and demand satisfaction. This input-output data is then passed onto a data-driven optimizer to recover a guaranteed feasible, near-optimal solution to the integrated planning and scheduling problem. We show the applicability of the proposed approach for the solution of a two-product planning and scheduling case study.

供应链管理是一个相互关联的问题,它需要跨长期(即供应链结构)、中期(即生产计划)和短期(即生产调度)操作的各种决策和要素的协调。传统上,此类问题的决策策略遵循一种顺序方法,即首先做出较长期的决策,并相应地在较低的级别实施。然而,在供应链的不同决策层之间存在共享变量,这些变量决定了整个供应链绩效的可行性和最优性。多级规划提供了一种全面的方法,明确地说明了供应链元素之间的内在层次和相互连接,然而,由于它们是强NP-hard的,因此需要更严格的解决方案策略。在这项工作中,我们使用DOMINO框架,这是一种数据驱动的优化算法,最初是为了解决单领导者单追随者双级混合整数优化问题而开发的,并进一步发展它来解决具有多追随者低级别问题的集成规划和调度公式,这在公开文献中尚未得到广泛关注。通过在预先指定的计划范围内对生产目标进行抽样,DOMINO确定地在每个抽样的每个计划期间解决调度问题,同时考虑到计划、库存和需求满意度的总成本。然后将该输入输出数据传递给数据驱动的优化器,以恢复集成计划和调度问题的保证可行的、接近最优的解决方案。我们展示了所提出的方法在解决两个产品计划和调度案例研究中的适用性。
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引用次数: 3
A Quality-by-Control Approach in Pharmaceutical Continuous Manufacturing of Oral Solid Dosage via Direct Compaction. 通过直接压制连续生产口服固体制剂的质量控制方法
Pub Date : 2019-01-01 DOI: 10.1016/b978-0-12-818634-3.50222-8
Qinglin Su, Sudarshan Ganesh, Dan Bao Le Vo, Anushaa Nukala, Yasasvi Bommireddy, Marcial Gonzalez, Gintaras V Reklaitis, Zoltan K Nagy

The pharmaceutical industry has been undergoing a paradigm shift towards continuous manufacturing, under which novel approaches to real-time product quality assurance have been investigated. A new perspective, entitled Quality-by-Control (QbC), has recently been proposed as an important extension and complementary approach to enable comprehensive Quality-by-Design (QbD) implementation. In this study, a QbC approach was demonstrated for a commercial scale tablet press in a continuous direct compaction process. First, the necessary understanding of the compressibility of a model formulation was obtained under QbD guidance using a pilot scale tablet press, Natoli BLP-16. Second, a data reconciliation strategy was used to reconcile the tablet weight measurement based on this understanding on a commercial scale tablet press, Natoli NP-400. Parameter estimation to monitor and update the material property variance was also considered. Third, a hierarchical three-level control strategy, which addressed the fast process dynamics of the commercial scale tablet press was designed. The strategy consisted of the Level 0 built-in machine control, Level 1 decoupled Proportional Integral Derivative (PID) control loops for tablet weight, pre-compression force, main compression force, and production rate control, and Level 2 data reconciliation of sensor measurements. The effective and reliable performance, which could be demonstrated on the rotary tablet press, confirmed that a QbC approach, based on product and process knowledge and advanced model-based techniques, can ensure robustness and efficiency in pharmaceutical continuous manufacturing.

制药业一直在向连续生产模式转变,在这种模式下,实时产品质量保证的新方法得到了研究。最近,一种名为 "质量控制(QbC)"的新观点被提出来,作为一种重要的扩展和补充方法,以实现全面的质量控制(QbD)。在本研究中,针对连续直接压制工艺中的商业规模压片机演示了 QbC 方法。首先,在 QbD 指导下,使用试验规模压片机 Natoli BLP-16 对模型配方的可压缩性进行了必要的了解。其次,根据对商用压片机 Natoli NP-400 的了解,采用数据调节策略调节片剂重量测量。此外,还考虑了参数估计,以监测和更新材料属性差异。第三,针对商业规模压片机的快速工艺动态,设计了一种分级式三级控制策略。该策略包括 0 级内置机器控制,用于片剂重量、预压缩力、主压缩力和生产率控制的 1 级解耦比例积分微分(PID)控制回路,以及 2 级传感器测量数据调节。在旋转压片机上展示的有效、可靠的性能证实,基于产品和工艺知识以及先进的基于模型的技术的质量控制方法可以确保药品连续生产的稳健性和效率。
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引用次数: 0
Development of the Texas A&M Superfund Research Program Computational Platform for Data Integration, Visualization, and Analysis. 德克萨斯农工大学超级基金研究项目数据集成、可视化和分析计算平台的开发。
Pub Date : 2019-01-01 DOI: 10.1016/B978-0-12-818634-3.50162-4
R. Mukherjee, Melis Onel, Burcu Beykal, Adam T. Szafran, F. Stossi, M. Mancini, Lan Zhou, F. Wright, E. Pistikopoulos
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引用次数: 2
Towards a Quantitative Food-Energy-Water Nexus Metric to Facilitate Decision Making in Process Systems: A Case Study on a Dairy Production Plant. 迈向量化的食物-能源-水关联度量,以促进过程系统中的决策:一个乳制品生产厂的案例研究。
Pub Date : 2018-01-01 Epub Date: 2018-07-04 DOI: 10.1016/B978-0-444-64235-6.50071-1
Styliani Avraamidou, Aaron Milhorn, Owais Sarwar, Efstratios N Pistikopoulos

While the importance of the Food-Energy-Water Nexus (FEW-N) has been widely accepted, a holistic approach to facilitate decision making in FEW-N systems, along with a quantitative index assessing the integrated FEW-N performance is rather lacking. In this work, we propose a FEW-N metric along with a framework to facilitate decision making for FEW-N process systems through a FEW-N integrated approach. The framework and metric are illustrated through a case study on a dairy production and processing plant. The dairy industry is a significant user of water and energy, with water being a top issue for most dairy industries and organizations worldwide. Following the framework, we develop a mixed-integer scheduling model, with alternative pathways, that faithfully replicated the major food, energy, and water aspects of a real cottage-cheese production plant. Using the developed FEW-N metric we were able to optimize the cottage-cheese plant process and observe different trade-offs between the FEW-N elements.

虽然食物-能源-水关系(FEW-N)的重要性已被广泛接受,但促进FEW-N系统决策的整体方法以及评估综合FEW-N性能的定量指标相当缺乏。在这项工作中,我们提出了一个FEW-N度量标准以及一个框架,通过一个FEW-N集成方法促进对FEW-N过程系统的决策制定。通过对乳制品生产和加工厂的案例研究说明了该框架和度量。乳制品行业是水和能源的重要用户,水是全球大多数乳制品行业和组织的首要问题。根据这个框架,我们开发了一个混合整数调度模型,具有可选择的路径,忠实地复制了一个真实的奶酪生产工厂的主要食物、能源和水方面。使用开发的FEW-N度量,我们能够优化村舍奶酪植物过程,并观察FEW-N元素之间的不同权衡。
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引用次数: 14
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