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Neuroevolution of Convolutional Neural Networks for Breast Cancer Diagnosis Using Western Blot Strips 卷积神经网络的神经进化用于乳腺癌症的蛋白质印迹诊断
IF 1.9 Pub Date : 2023-05-24 DOI: 10.3390/mca28030072
José-Luis Llaguno-Roque, R. Barrientos-Martínez, H. Acosta-Mesa, T. Romo-González, E. Mezura-Montes
Breast cancer has become a global health problem, ranking first in incidences and fifth in mortality in women around the world. In Mexico, the first cause of death in women is breast cancer. This work uses deep learning techniques to discriminate between healthy and breast cancer patients, based on the banding patterns obtained from the Western Blot strip images of the autoantibody response to antigens of the T47D tumor line. The reaction of antibodies to tumor antigens occurs early in the process of tumorigenesis, years before clinical symptoms. One of the main challenges in deep learning is the design of the architecture of the convolutional neural network. Neuroevolution has been used to support this and has produced highly competitive results. It is proposed that neuroevolve convolutional neural networks (CNN) find an optimal architecture to achieve competitive ranking, taking Western Blot images as input. The CNN obtained reached 90.67% accuracy, 90.71% recall, 95.34% specificity, and 90.69% precision in classifying three different classes (healthy, benign breast pathology, and breast cancer).
癌症已经成为一个全球性的健康问题,在世界各地的妇女中发病率排名第一,死亡率排名第五。在墨西哥,女性死亡的首要原因是乳腺癌症。这项工作使用深度学习技术来区分健康和乳腺癌症患者,基于从T47D肿瘤系抗原的自身抗体反应的Western Blot条带图像获得的条带模式。抗体对肿瘤抗原的反应发生在肿瘤发生的早期,比临床症状早几年。深度学习的主要挑战之一是卷积神经网络架构的设计。神经进化已经被用来支持这一点,并产生了极具竞争力的结果。提出了神经进化卷积神经网络(CNN)以Western Blot图像为输入,找到一种实现竞争排名的最佳架构。所获得的CNN在对三个不同类别(健康、良性乳腺病理和乳腺癌症)进行分类时达到90.67%的准确率、90.71%的回忆率、95.34%的特异性和90.69%的准确率。
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引用次数: 0
Sierpiński Fractals and the Dimension of Their Laplacian Spectrum Sierpiński分形及其拉普拉斯谱的维数
IF 1.9 Pub Date : 2023-05-17 DOI: 10.3390/mca28030070
M. Pollicott, J. Slipantschuk
We establish rigorous estimates for the Hausdorff dimension of the spectra of Laplacians associated with Sierpiński lattices and infinite Sierpiński gaskets and other post-critically finite self-similar sets.
我们建立了与Sierpiński格和无限Sierpiński垫片以及其他后临界有限自相似集相关的拉普拉斯谱的Hausdorff维数的严格估计。
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引用次数: 2
Numerical Aspects of a Continuum Sintering Model Formulated in the Standard Dissipative Framework 在标准耗散框架中制定的连续烧结模型的数值方面
IF 1.9 Pub Date : 2023-05-17 DOI: 10.3390/mca28030069
S. Stark
Robust and computationally efficient numeric algorithms are required to simulate the sintering process of complex ceramic components by means of the finite element method. This work focuses on a thermodynamically consistent sintering model capturing the effects of both, viscosity and elasticity, within the standard dissipative framework. In particular, the temporal integration of the model by means of several implicit first and second order accurate one step time integration methods is discussed. It is shown in terms of numerical experiments on the material point level that the first order schemes exhibit poor performance when compared to second order schemes. Further numerical experiments indicate that the results translate directly to finite element simulations.
用有限元法模拟复杂陶瓷构件的烧结过程,需要具有鲁棒性和计算效率高的数值算法。这项工作的重点是热力学一致的烧结模型捕捉两者的影响,粘度和弹性,在标准耗散框架内。特别讨论了几种隐式一阶和二阶精确单步时间积分方法对模型进行时间积分的方法。在物质点水平上的数值实验表明,与二阶格式相比,一阶格式的性能较差。进一步的数值实验表明,结果可以直接转化为有限元模拟。
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引用次数: 1
Intermediate Encoding Layers for the Generative Design of 2D Soft Robot Actuators: A Comparison of CPPN’s, L-Systems and Random Generation 用于二维软机器人执行器生成设计的中间编码层:CPPN、L系统和随机生成的比较
IF 1.9 Pub Date : 2023-05-15 DOI: 10.3390/mca28030068
M. Venter, Naudé Thomas Conradie
This paper introduced a comparison method for three explicitly defined intermediate encoding methods in generative design for two-dimensional soft robotic units. This study evaluates a conventional genetic algorithm with full access to removing elements from the design domain using an implicit random encoding layer, a Lindenmayer system encoding mimicking biological growth patterns and a compositional pattern producing network encoding for 2D pattern generation. The objective of the optimisation problem is to match the deformation of a single actuator unit with a desired target shape, specifically uni-axial elongation, under internal pressure. The study results suggest that the Lindenmayer system encoding generates candidate units with fewer function evaluations than the traditional implicitly encoded genetic algorithm. However, the distribution of constraint and internal energy is similar to that of the random encoding, and the Lindenmayer system encoding produces a less diverse population of candidate units. In contrast, despite requiring more function evaluations than the Lindenmayer System encoding, the Compositional Pattern Producing Network encoding produces a similar diversity of candidate units. Overall, the Compositional Pattern Producing Network encoding results in a proportionally higher number of high-performing units than the random or Lindenmayer system encoding, making it a viable alternative to a conventional monolithic approach. The results suggest that the compositional pattern producing network encoding may be a promising approach for designing soft robotic actuators with desirable performance characteristics.
介绍了二维软机器人单元生成设计中三种明确定义的中间编码方法的比较方法。本研究评估了一种传统的遗传算法,该算法使用隐式随机编码层、模拟生物生长模式的林登迈尔系统编码和用于生成2D模式的合成模式生成网络编码,完全可以从设计领域中删除元素。优化问题的目标是在内部压力下将单个致动器单元的变形与期望的目标形状(特别是单轴伸长)相匹配。研究结果表明,与传统隐式编码遗传算法相比,Lindenmayer系统编码产生的候选单元函数求值更少。然而,约束和内能的分布与随机编码相似,并且Lindenmayer系统编码产生的候选单元的总体多样性较小。相比之下,尽管比Lindenmayer系统编码需要更多的功能评估,但组合模式生成网络编码产生了相似的候选单元多样性。总的来说,组合模式生成网络编码比随机或Lindenmayer系统编码产生更多的高性能单元,使其成为传统单片方法的可行替代方案。结果表明,产生网络编码的组合模式可能是设计具有理想性能特性的软机器人执行器的一种有前途的方法。
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引用次数: 0
Routing, Modulation Level, and Spectrum Assignment in Elastic Optical Networks—A Serial Stage Approach with Multiple Sub-Sets of Requests Based on Integer Linear Programming 弹性光网络中的路由、调制电平和频谱分配——基于整数线性规划的多请求子集串行阶段方法
IF 1.9 Pub Date : 2023-05-10 DOI: 10.3390/mca28030067
Luis Víctor Maidana Benítez, Melisa María Rosa Villamayor Paredes, José Colbes, César F. Bogado-Martínez, B. Barán, D. Pinto-Roa
This paper addresses serialized approaches of the routing, modulation level, and spectrum assignment (RMLSA) problem in elastic optical networks, using multiple sequential sub-sets of requests, under Integer Linear Programming (ILP). The literature has reported two-stage serial optimization methods referred to as RML+SA, which retain computational efficiency when the problem grows, compared to the classical one-stage RMLSA optimization approach. However, there still remain numerous issues in terms of the spectrum used that can be improved when compared to the RMLSA solution. Consequently, this paper proposes RML+SA solutions considering multiple sequential sub-sets of requests, split traffic flow, as well as path-oriented and link-oriented routing models. Simulation results on different test scenarios determine that: (a) the multiple sequential sub-sets of request-based models improve computation time without worsening the spectrum usage when compared to just one set of requests optimization approaches, (b) divisible traffic flow approaches show promise in cases where the number of request sub-sets is low compared to the non-divisible counterpart, and (c) path-oriented routing succeeds in improving the used spectrum by increasing the number of candidate routes compared to link-oriented routing.
本文讨论了在整数线性规划(ILP)下,使用多个顺序请求子集的弹性光网络中路由、调制电平和频谱分配(RMLSA)问题的串行化方法。文献报道了称为RML+SA的两阶段串行优化方法,与经典的一阶段RMLSA优化方法相比,该方法在问题发展时保持了计算效率。然而,与RMLSA解决方案相比,在所使用的频谱方面仍然存在许多可以改进的问题。因此,本文提出了RML+SA解决方案,考虑了多个顺序请求子集、分流流量以及面向路径和面向链路的路由模型。不同测试场景的仿真结果表明:(a)与仅一组请求优化方法相比,基于请求的模型的多个顺序子集在不恶化频谱使用的情况下提高了计算时间,以及(c)与面向链路的路由相比,面向路径的路由通过增加候选路由的数量来成功地改进所使用的频谱。
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引用次数: 0
Applying Quaternions to Recognize Hidden Details in Images: Rothko as a Case Study 应用四元数识别图像中的隐藏细节——以Rothko为例
IF 1.9 Pub Date : 2023-05-09 DOI: 10.3390/mca28030066
Adam Aharony, Ron Hindi, Maor Valdman, Shai Gul
Images or paintings with homogeneous colors may appear dull to the naked eye; however, there may be numerous details in the image that are expressed through subtle changes in color. This manuscript introduces a novel approach that can uncover these concealed details via a transformation that increases the distance between adjacent pixels, ultimately leading to a newly modified version of the input image. We chose the artworks of Mark Rothko—famous for their simplicity and limited color palette—as a case study. Our approach offers a different perspective, leading to the discovery of either accidental or deliberate clusters of colors. Our method is based on the quaternion ring, wherein a suitable multiplication can be used to boost the color difference between neighboring pixels, thereby unveiling new details in the image. The quality of the transformation between the original image and the resultant versions can be measured by the ratio between the number of connected components in the original image (m) and the number of connected components in the output versions (n), which usually satisfies nm≫1. Although this procedure has been employed as a case study for artworks, it can be applied to any type of image with a similar simplicity and limited color palette.
颜色均匀的图像或绘画在肉眼看来可能显得暗淡;然而,图像中可能有许多细节是通过颜色的细微变化来表达的。这篇手稿介绍了一种新的方法,可以通过增加相邻像素之间距离的变换来揭示这些隐藏的细节,最终产生新的输入图像修改版本。我们选择了马克·罗斯科(Mark Rothko)的作品作为案例研究。罗斯科以其简洁和有限的调色板而闻名。我们的方法提供了一个不同的视角,导致偶然或故意发现颜色集群。我们的方法基于四元数环,其中可以使用适当的乘法来提高相邻像素之间的色差,从而揭示图像中的新细节。原始图像和结果版本之间的转换质量可以通过原始图像中连接分量的数量(m)和输出版本中连接分量数量(n)之间的比率来测量,该比率通常满足nḿ1。尽管该程序已被用作艺术品的案例研究,但它可以应用于任何类型的图像,具有类似的简单性和有限的调色板。
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引用次数: 0
Notes on the Transversality Method for Iterated Function Systems—A Survey 关于迭代函数系统的遍历方法的注记——综述
IF 1.9 Pub Date : 2023-05-04 DOI: 10.3390/mca28030065
B. Solomyak
This is a brief survey of selected results obtained using the “transversality method” developed for studying parametrized families of fractal sets and measures. We mostly focus on the early development of the theory, restricting ourselves to self-similar and self-conformal iterated function systems.
本文简要介绍了用“横向方法”研究分形集和测度的参数化族所获得的一些结果。我们主要关注理论的早期发展,局限于自相似和自保角迭代函数系统。
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引用次数: 1
The Use of Computational Fluid Dynamics for Assessing Flow-Induced Acoustics to Diagnose Lung Conditions 计算流体动力学在评估流致声学诊断肺部疾病中的应用
IF 1.9 Pub Date : 2023-05-03 DOI: 10.3390/mca28030064
Khanyisani Makhanya, S. Connell, M. Bhamjee, N. Martinson
Pulmonary diseases are a leading cause of illness and disability globally. While having access to hospitals or specialist clinics for investigations is currently the usual way to characterize the patient’s condition, access to medical services is restricted in less resourced settings. We posit that pulmonary disease may impact on vocalization which could aid in characterizing a pulmonary condition. We therefore propose a new method to diagnose pulmonary disease analyzing the vocal and cough changes of a patient. Computational fluid dynamics holds immense potential for assessing the flow-induced acoustics in the lungs. The aim of this study is to investigate the potential of flow-induced vocal-, cough-, and lung-generated acoustics to diagnose lung conditions using computational fluid dynamics methods. In this study, pneumonia is the model disease which is studied. The hypothesis is that using a computational fluid dynamics model for assessing the flow-induced acoustics will accurately represent the flow-induced acoustics for healthy and infected lungs and that possible modeled difference in fluid and acoustic behavior between these pathologies will be tested and described. Computational fluid dynamics and a lung geometry will be used to simulate the flow distribution and obtain the acoustics for the different scenarios. The results suggest that it is possible to determine the difference in vocalization between healthy lungs and those with pneumonia, using computational fluid dynamics, as the flow patterns and acoustics differ. Our results suggest there is potential for computational fluid dynamics to enhance understanding of flow-induced acoustics that could be characteristic of different lung pathologies. Such simulations could be repeated using machine learning with the final objective to use telemedicine to triage or diagnose patients with respiratory illness remotely.
肺部疾病是全球疾病和残疾的主要原因。虽然到医院或专科诊所接受检查是目前确定患者病情的通常方法,但在资源不足的地区,获得医疗服务的机会受到限制。我们假设肺部疾病可能会影响发声,这可能有助于表征肺部疾病。因此,我们提出了一种诊断肺部疾病的新方法,分析患者的声音和咳嗽变化。计算流体动力学在评估肺部的流动声学方面具有巨大的潜力。本研究的目的是利用计算流体动力学方法研究流诱导的声音、咳嗽和肺部产生的声学诊断肺部疾病的潜力。本研究以肺炎为模型疾病进行研究。假设是,使用计算流体动力学模型来评估流诱导声学将准确地代表健康和感染肺部的流诱导声学,并且这些疾病之间流体和声学行为的可能模型差异将被测试和描述。计算流体力学和肺几何将用于模拟流动分布,并获得不同情况下的声学。结果表明,由于流动模式和声学不同,使用计算流体动力学可以确定健康肺部和肺炎患者之间发声的差异。我们的研究结果表明,计算流体动力学有可能增强对不同肺部病理特征的流诱导声学的理解。这种模拟可以使用机器学习进行重复,最终目标是使用远程医疗对呼吸系统疾病患者进行分类或远程诊断。
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引用次数: 0
Computation of the Distribution of the Sum of Independent Negative Binomial Random Variables 独立负二项随机变量和分布的计算
IF 1.9 Pub Date : 2023-04-28 DOI: 10.3390/mca28030063
M. Girondot, J. Barry
The distribution of the sum of negative binomial random variables has a special role in insurance mathematics, actuarial sciences, and ecology. Two methods to estimate this distribution have been published: a finite-sum exact expression and a series expression by convolution. We compare both methods, as well as a new normalized saddlepoint approximation, and normal and single distribution negative binomial approximations. We show that the exact series expression used lots of memory when the number of random variables was high (>7). The normalized saddlepoint approximation gives an output with a high relative error (around 3–5%), which can be a problem in some situations. The convolution method is a good compromise for applied practitioners, considering the amount of memory used, the computing time, and the precision of the estimates. However, a simplistic implementation of the algorithm could produce incorrect results due to the non-monotony of the convergence rate. The tolerance limit must be chosen depending on the expected magnitude order of the estimate, for which we used the answer generated by the saddlepoint approximation. Finally, the normal and negative binomial approximations should not be used, as they produced outputs with a very low accuracy.
负二项随机变量和的分布在保险数学、精算科学和生态学中具有特殊的作用。估计这种分布的两种方法已经发表:有限和精确表达式和卷积级数表达式。我们比较了这两种方法,以及一种新的归一化鞍点近似,以及正态和单分布负二项近似。我们表明,当随机变量的数量很高时,精确的序列表达式使用了大量的内存(>7)。标准化鞍点近似给出的输出具有较高的相对误差(约3-5%),这在某些情况下可能是一个问题。考虑到所使用的内存量、计算时间和估计的精度,卷积方法对于应用实践者来说是一个很好的折衷方案。然而,由于收敛速度的非单调性,该算法的简单实现可能会产生不正确的结果。必须根据估计的期望数量级来选择公差极限,对此我们使用了鞍点近似生成的答案。最后,不应该使用正态和负二项近似,因为它们产生的输出精度非常低。
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引用次数: 0
Evaluation of Physics-Informed Neural Network Solution Accuracy and Efficiency for Modeling Aortic Transvalvular Blood Flow 基于物理信息的神经网络解在主动脉瓣血流建模中的准确性和有效性评估
IF 1.9 Pub Date : 2023-04-14 DOI: 10.3390/mca28020062
Jacques Francois Du Toit, R. Laubscher
Physics-Informed Neural Networks (PINNs) are a new class of machine learning algorithms that are capable of accurately solving complex partial differential equations (PDEs) without training data. By introducing a new methodology for fluid simulation, PINNs provide the opportunity to address challenges that were previously intractable, such as PDE problems that are ill-posed. PINNs can also solve parameterized problems in a parallel manner, which results in favorable scaling of the associated computational cost. The full potential of the application of PINNs to solving fluid dynamics problems is still unknown, as the method is still in early development: many issues remain to be addressed, such as the numerical stiffness of the training dynamics, the shortage of methods for simulating turbulent flows and the uncertainty surrounding what model hyperparameters perform best. In this paper, we investigated the accuracy and efficiency of PINNs for modeling aortic transvalvular blood flow in the laminar and turbulent regimes, using various techniques from the literature to improve the simulation accuracy of PINNs. Almost no work has been published, to date, on solving turbulent flows using PINNs without training data, as this regime has proved difficult. This paper aims to address this gap in the literature, by providing an illustrative example of such an application. The simulation results are discussed, and compared to results from the Finite Volume Method (FVM). It is shown that PINNs can closely match the FVM solution for laminar flow, with normalized maximum velocity and normalized maximum pressure errors as low as 5.74% and 9.29%, respectively. The simulation of turbulent flow is shown to be a greater challenge, with normalized maximum velocity and normalized maximum pressure errors only as low as 41.8% and 113%, respectively.
物理知情神经网络(PINN)是一类新的机器学习算法,能够在没有训练数据的情况下精确求解复杂偏微分方程(PDE)。通过引入一种新的流体模拟方法,PINN提供了解决以前难以解决的挑战的机会,例如不适定的PDE问题。PINN还可以以并行方式解决参数化问题,这导致了相关计算成本的有利缩放。PINN应用于解决流体动力学问题的全部潜力仍然未知,因为该方法仍处于早期开发阶段:许多问题仍有待解决,如训练动力学的数值刚度、湍流模拟方法的短缺以及围绕什么模型超参数表现最好的不确定性。在本文中,我们研究了PINN在层流和湍流状态下模拟主动脉跨瓣血流的准确性和效率,使用文献中的各种技术来提高PINN的模拟准确性。迄今为止,几乎没有发表过在没有训练数据的情况下使用PINN解决湍流的工作,因为事实证明,这种制度很困难。本文旨在通过提供一个此类应用的示例来解决文献中的这一空白。对模拟结果进行了讨论,并与有限体积法(FVM)的结果进行了比较。结果表明,PINN可以与层流的FVM解非常匹配,归一化最大速度和归一化最大压力误差分别低至5.74%和9.29%。湍流模拟是一个更大的挑战,归一化最大速度和归一化最大压力误差分别仅低至41.8%和113%。
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引用次数: 0
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Mathematical & Computational Applications
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