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Exploring Pathogenic Mutation in Allosteric Proteins: The Prediction and Beyond 探索变构蛋白的致病突变:预测和超越
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010226
Huiling Zhang;Zhen Ju;Jingjing Zhang;Xijian Li;Hanyang Xiao;Xiaochuan Chen;Yuetong Li;Xinran Wang;Yanjie Wei
In the post-genomic era, a central challenge for disease genomes is the identification of the biological effects of specific somatic variants on allosteric proteins and the phenotypes they influence during the initiation and progression of diseases. Here, we analyze more than 38 539 mutations observed in 90 human genes with 740 allosteric protein chains. We find that existing allosteric protein mutations are associated with many diseases, but the clinical significance of most mutations in allosteric proteins remains unclear. Next, we develop an ensemble-learning-based model for pathogenic mutation prediction of allosteric proteins based on the intrinsic characteristics of proteins and the prediction results from existed methods. When tested on the benchmark allosteric protein dataset, the proposed method achieves an AUCs of 0.868 and an AUPR of 0.894 on allosteric proteins. Furthermore, we explore the performance of existing methods in predicting the pathogenicity of mutations at allosteric sites and identify potential significant pathogenic mutations at allosteric sites using the proposed method. In summary, these findings illuminate the significance of allosteric mutation in disease processes, and contribute a valuable tool for the identification of pathogenic mutations as well as previously unknown disease-causing allosteric-protein-encoded genes.
在后基因组时代,疾病基因组的核心挑战是确定特定体细胞变异对变构蛋白的生物学效应及其在疾病发生和发展过程中所影响的表型。在这里,我们分析了90个人类基因中观察到的超过38539个突变,涉及740个变构蛋白链。我们发现现有的变构蛋白突变与许多疾病有关,但大多数变构蛋白突变的临床意义尚不清楚。接下来,我们基于蛋白质的内在特征和现有方法的预测结果,建立了一个基于集成学习的变构蛋白致病突变预测模型。在基准变构蛋白数据集上测试,该方法在变构蛋白上的auc为0.868,AUPR为0.894。此外,我们探索了现有方法在预测变构位点突变致病性方面的性能,并使用所提出的方法识别变构位点潜在的重要致病突变。总之,这些发现阐明了变构突变在疾病过程中的重要性,并为鉴定致病突变以及以前未知的致病变构蛋白编码基因提供了有价值的工具。
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引用次数: 0
A Novel Zeroing Neural Network for Time-Varying Matrix Pseudoinversion in the Presence of Linear Noises 线性噪声下时变矩阵伪反演的归零神经网络
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010120
Jianfeng Li;Linxi Qu;Yueming Zhu;Zhan Li;Bolin Liao
The computation of matrix pseudoinverses is a recurrent requirement across various scientific computing and engineering domains. The prevailing models for matrix pseudoinverse typically operate under the assumption of a noise-free solution process or presume that any noise present has been effectively addressed prior to computation. However, the concurrent real-time computation of time-varying matrix pseudoinverses holds significant practical utility, while the preemptive preprocessing for noise elimination or reduction may impose supplementary computational overheads on real-time implementations. Different from previous models for solving the pseudoinverse of time-varying matrices, in this paper, a model for solving the pseudoinverse of time-varying matrices using a double-integral structure, called Double-Integral-Enhanced Zeroing Neural Network (DIEZNN) model, is proposed and investigated, which is capable of solving time-varying matrix pseudoinverse while efficiently eliminating the negative effects of linear noise perturbations. The experimental results show that in the presence of linear noise, the DIEZNN model demonstrates better noise suppression performance compared to both the original zeroing neural network model and the Zeroing Neural Network (ZNN) model enhanced with a Li-type activation function. In addition, these models are applied to the control of chaotic system of controllable permanent magnet synchronous motor, which further verifies the superiority of DIEZNN in engineering application.
矩阵伪逆的计算是各种科学计算和工程领域中反复出现的需求。主流的矩阵伪逆模型通常在无噪声求解过程的假设下运行,或者假设在计算之前已经有效地处理了存在的任何噪声。然而,时变矩阵伪逆的并发实时计算具有重要的实用价值,而用于消除或减少噪声的抢占式预处理可能会给实时实现带来额外的计算开销。与以往求解时变矩阵伪逆的模型不同,本文提出并研究了一种利用双积分结构求解时变矩阵伪逆的模型——双积分增强归零神经网络(DIEZNN)模型,该模型能够在求解时变矩阵伪逆的同时有效地消除线性噪声扰动的负面影响。实验结果表明,在线性噪声存在的情况下,DIEZNN模型比原始归零神经网络模型和li型激活函数增强的归零神经网络(ZNN)模型都具有更好的噪声抑制性能。并将该模型应用于可控永磁同步电机混沌系统的控制中,进一步验证了DIEZNN在工程应用中的优越性。
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引用次数: 0
End-to-End Two-Branch Bionic Network for Autonomous Driving 端到端自动驾驶双分支仿生网络
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010170
Guoliang Sun;Sifa Zheng;Xingrui Gong;Yijie Pan;Rui Yang;Yingying Yu;Shanshan Pei
Most traffic accidents are caused by improper driver operation, so autonomous driving based on rapidly developing artificial intelligence technology has attracted much attention. Inspired by the biological visual perception and neural decision-making mechanism, this paper constructs a two-branch bionic network for autonomous driving, which learns to map the driver's perspective image directly to the steering commands. On the real-world driving dataset we collected, extensive experiments prove the efficiency, robustness, superior structure and biological interpretability of this end-to-end algorithm. Moreover, the flexible scalability of this network greatly supports real-time inference and deployment.
大多数交通事故都是由于驾驶员操作不当造成的,因此基于快速发展的人工智能技术的自动驾驶备受关注。受生物视觉感知和神经决策机制的启发,构建了一个用于自动驾驶的双分支仿生网络,该网络学习将驾驶员的视角图像直接映射到转向指令上。在我们收集的真实驾驶数据集上,大量的实验证明了这种端到端算法的效率、鲁棒性、优越的结构和生物可解释性。此外,该网络灵活的可扩展性极大地支持了实时推理和部署。
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引用次数: 0
Error-Accumulation Improved Newton Algorithm in Model Predictive Control for Novel Compliant Actuator-Driven Upper-Limb Exoskeleton 基于误差积累改进牛顿算法的柔性外骨骼模型预测控制
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010145
Changxian Xu;Jiliang Zhang;Keping Liu;Jian Wang;Zhongbo Sun
In this paper, a Novel Compliant Actuator (NCA)-driven Upper-Limb Exoskeleton (ULE) with force controllable, impact resistance, and back drivability is designed to ensure the safety of the subject during Human-Robot Interaction (HRI) processing. Based on the designed NCA-driven ULE, this paper constructs a Model Predictive Control Scheme (MPCS) for force trajectory tracking, which minimises future tracking errors by solving an optimal control problem with inequality constraints. In addition, an Error-Accumulation Improved Newton Algorithm (EAINA) is proposed to solve the MPCS for suppressing various noises and external disturbances. The proposed EAINA is theoretically proved to have small steady state for noise conditions and stability of the EAINA using Lyapunov method. Finally, experimental results verify that the proposed MPCS solved by the EAINA in the NCA-driven ULE achieves robustness, fast convergence, strong tolerance and stability for trajectory rehabilitation task.
为了保证人体在人机交互(HRI)过程中的安全,设计了一种新型柔性驱动器(NCA)驱动的上肢外骨骼(ULE),该外骨骼具有力可控、抗冲击和向后驾驶能力。基于所设计的nca驱动ULE,本文构建了一种用于力轨迹跟踪的模型预测控制方案(MPCS),通过求解不等式约束下的最优控制问题,使未来跟踪误差最小化。此外,提出了一种误差积累改进牛顿算法(EAINA)来解决MPCS抑制各种噪声和外部干扰的问题。利用李亚普诺夫方法从理论上证明了该EAINA在噪声条件下具有小稳态和稳定性。最后,实验结果验证了在nca驱动的ULE中由EAINA求解的MPCS对轨迹修复任务具有鲁棒性、快速收敛性、强容忍度和稳定性。
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引用次数: 0
Rodent Arena Multi-View Monitor (RAMM): A Camera Synchronized Photographic Control System for Multi-View Rodent Monitoring 啮齿动物竞技场多视点监视器(RAMM):一种用于啮齿动物多视点监测的摄像机同步摄影控制系统
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010117
Bingbin Liu;Yuxuan Qian;Jianxin Wang
Although multi-view monitoring techniques have been widely applied in skinned model reconstruction and movement analysis, traditional systems using high-performance Personal Computers (PCs), or industrial cameras are often prohibitive due to high costs and limited scalability. Here, we introduce an affordable, scalable multi-view image acquisition system for skinned model reconstruction in animal studies, utilizing consumer Android devices and a wireless network for synchronized monitoring named Rodent Arena Multi-View Monitor (RAMM). It uses smartphones as camera nodes with local data storage, enabling cost-effective scalability. Its custom synchronization solution and portability make it ideal for research and education in rodent behavior analysis, offering a practical alternative for institutions with limited budgets. Furthermore, the portability and flexibility of this system make it an ideal tool for rodent skinned model research based on multi-view image acquisition. To evaluate the performance, we perform an oscilloscope analysis to ensure effectiveness of synchronization. A 45-camera node setup is built to highlight RAMM's cost efficiency and ease in constructing large-scale systems. Additionally, the data quality is validated using the Instant Neural Graphics Primitives (Instant-NGP) method. Remarkable results were achieved with a 30.49 dB PSNR by utilizing only 25 images with intrinsic and extrinsic parameters, fulfilling the requirements for well-synchronized data used in 3D representation algorithms.
尽管多视图监控技术已广泛应用于蒙皮模型重建和运动分析,但由于成本高和可扩展性有限,使用高性能个人计算机(pc)或工业相机的传统系统往往令人望而却步。在这里,我们介绍了一种经济实惠,可扩展的多视图图像采集系统,用于动物研究中的皮肤模型重建,利用消费者Android设备和无线网络进行同步监测,名为啮齿动物竞技场多视图监视器(RAMM)。它使用智能手机作为带有本地数据存储的摄像头节点,实现了经济高效的可扩展性。它的定制同步解决方案和可移植性使其成为啮齿动物行为分析研究和教育的理想选择,为预算有限的机构提供了一个实用的选择。此外,该系统的便携性和灵活性使其成为基于多视角图像采集的啮齿动物皮肤模型研究的理想工具。为了评估性能,我们进行了示波器分析以确保同步的有效性。45个摄像机节点的设置突出了RAMM的成本效率和构建大型系统的便利性。此外,使用即时神经图形原语(Instant- ngp)方法验证数据质量。仅使用25张具有内在和外在参数的图像,就获得了30.49 dB的PSNR,满足了3D表示算法中使用的良好同步数据的要求。
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引用次数: 0
Feedback Feedforward Iterative Learning Control for Networked Nonlinear System Under Iteratively Variable Trial Lengths and Data Dropouts 网络非线性系统在迭代变试验长度和数据丢失条件下的反馈前馈迭代学习控制
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010130
Yunshan Wei;Sixian Xiong;Wenli Shang
This paper proposed a feedback feedforward Iterative Learning Control (ILC) law for nonlinear system with iteratively variable trial lengths under a networked systems structure, where the both sensor and actuator occurs random data lost separately. The feedforward ILC part includes the calculated input signal, actual input signal, and the modified tracking error of last iteration. Some tracking signal would be lost at last iteration because of the iterative varying trial lengths. In order to offset the missing signal of last trial, the tracking error of present trial is adopted by feedback control part. It is established that the convergence relied on the feedforward control gain merely, while the rate of convergence is also expedited by the feedback control component. When the initial state expectation equals to the reference one, it is established that the tracking error expectation can be controlled to zero. With an illustrative simulation, the effectiveness of the developed algorithm can be demonstrated.
针对网络系统结构下传感器和执行器分别发生随机数据丢失的迭代变试验长度非线性系统,提出了一种反馈前馈迭代学习控制(ILC)律。前馈ILC部分包括计算输入信号、实际输入信号和上次迭代修正的跟踪误差。在最后一次迭代中,由于迭代试验长度的变化,会丢失一些跟踪信号。为了补偿上次试验的缺失信号,反馈控制部分采用了本次试验的跟踪误差。结果表明,该算法的收敛性仅依赖于前馈控制增益,而反馈控制元件也能加快收敛速度。当初始状态期望等于参考状态期望时,建立了跟踪误差期望可以控制为零。通过一个说明性的仿真,可以证明所开发算法的有效性。
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引用次数: 0
Efficient Backbone Network Construction in Wireless Artificial Intelligent Computing Systems 无线人工智能计算系统中高效骨干网的构建
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010259
Ming Sun;Xinyu Wu;Yi Zhou;Jin-Kao Hao;Zhang-Hua Fu
In wireless artificial intelligent computing systems, the construction of backbone network, which determines the optimum network for a set of given terminal nodes like users, switches, and concentrators, can be naturally formed as the Steiner tree problem. The Steiner tree problem asks for a minimum edge-weighted tree spanning a given set of terminal vertices from a given graph. As a well-known graph problem, many algorithms have been developed for solving this computationally challenging problem in the past decades. However, existing algorithms typically encounter difficulties for solving large instances, i.e., graphs with a high number of vertices and terminals. In this paper, we present a novel partition-and-merge algorithm for effectively handle large-scale graphs. The algorithm breaks the input network into small subgraphs and then merges the subgraphs in a bottom-up manner. In the merging procedure, partial Steiner trees in the subgraphs are also created and optimized by an efficient local optimization. When the merging procedure ends, the algorithm terminates and reports the final solution for the input graph. We evaluated the algorithm on a wide range of benchmark instances, showing that the algorithm outperforms the best-known algorithms on large instances and competes favorably with them on small or middle-sized instances.
在无线人工智能计算系统中,确定用户、交换机、集中器等一组给定终端节点的最优网络,骨干网的构建可以很自然地形成为斯坦纳树问题。斯坦纳树问题要求从给定图中生成一组给定端点的最小边权树。作为一个众所周知的图问题,在过去的几十年里,已经开发了许多算法来解决这个具有计算挑战性的问题。然而,现有算法通常在解决大型实例(即具有大量顶点和终端的图)时遇到困难。本文提出了一种有效处理大规模图的分割合并算法。该算法将输入网络分解成小的子图,然后以自下而上的方式合并子图。在归并过程中,通过高效的局部优化,创建了子图中的部分斯坦纳树,并对其进行了优化。当合并过程结束时,算法终止并报告输入图的最终解。我们在广泛的基准实例上评估了该算法,表明该算法在大型实例上优于最知名的算法,并在中小型实例上与它们竞争。
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引用次数: 0
Deep Bi-Directional Adaptive Gating Graph Convolutional Networks for Spatio-Temporal Traffic Forecasting 基于深度双向自适应门控图卷积网络的时空交通预测
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST2024.9010134
Xin Wang;Jianhui Lv;Madini O. Alassafi;Fawaz E. Alsaadi;B. D. Parameshachari;Longhao Zou;Gang Feng;Zhonghua Liu
With the advent of deep learning, various deep neural network architectures have been proposed to capture the complex spatio-temporal dependencies in traffic data. This paper introduces a novel Deep Bi-directional Adaptive Gating Graph Convolutional Network (DBAG-GCN) model for spatio-temporal traffic forecasting. The proposed model leverages the power of graph convolutional networks to capture the spatial dependencies in the road network topology and incorporates bi-directional gating mechanisms to control the information flow adaptively. Furthermore, we introduce a multi-scale temporal convolution module to capture multi-scale temporal dynamics and a contextual attention mechanism to integrate external factors such as weather conditions and event information. Extensive experiments on real-world traffic datasets demonstrate the superior performance of DBAG-GCN compared to state-of-the-art baselines, achieving significant improvements in prediction accuracy and computational efficiency. The DBAG-GCN model provides a powerful and flexible framework for spatio-temporal traffic forecasting, paving the way for intelligent transportation management and urban planning.
随着深度学习的出现,人们提出了各种深度神经网络架构来捕获交通数据中复杂的时空依赖关系。提出了一种新的深度双向自适应门控图卷积网络(DBAG-GCN)时空交通预测模型。该模型利用图卷积网络的能力来捕获道路网络拓扑中的空间依赖关系,并结合双向门控机制来自适应控制信息流。此外,我们引入了一个多尺度时间卷积模块来捕获多尺度时间动态,并引入了一个上下文注意机制来整合天气条件和事件信息等外部因素。在真实交通数据集上进行的大量实验表明,与最先进的基线相比,DBAG-GCN具有优越的性能,在预测精度和计算效率方面取得了显着提高。DBAG-GCN模型为交通时空预测提供了一个强大而灵活的框架,为智能交通管理和城市规划铺平了道路。
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引用次数: 0
Towards Federated Learning Driving Technology for Privacy-Preserving Micro-Expression Recognition 面向隐私保护微表情识别的联邦学习驱动技术研究
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010098
Mingpei Wang;Ling Zhou;Xiaohua Huang;Wenming Zheng
As mobile devices and sensor technology advance, their role in communication becomes increasingly indispensable. Micro-expression recognition, an invaluable non-verbal communication method, has been extensively studied in human-computer interaction, sentiment analysis, and security fields. However, the sensitivity and privacy implications of micro-expression data pose significant challenges for centralized machine learning methods, raising concerns about serious privacy leakage and data sharing. To address these limitations, we investigate a federated learning scheme tailored specifically for this task. Our approach prioritizes user privacy by employing federated optimization techniques, enabling the aggregation of clients' knowledge in an encrypted space without compromising data privacy. By integrating established micro-expression recognition methods into our framework, we demonstrate that our approach not only ensures robust data protection but also maintains high recognition performance comparable to non-privacy-preserving mechanisms. To our knowledge, this marks the first application of federated learning to the micro-expression recognition task.
随着移动设备和传感器技术的进步,它们在通信中的作用变得越来越不可或缺。微表情识别作为一种宝贵的非语言交流方法,在人机交互、情感分析、安全等领域得到了广泛的研究。然而,微表情数据的敏感性和隐私影响对集中式机器学习方法构成了重大挑战,引发了对严重隐私泄露和数据共享的担忧。为了解决这些限制,我们研究了一个专门为这项任务量身定制的联邦学习方案。我们的方法通过使用联邦优化技术来优先考虑用户隐私,从而在不损害数据隐私的情况下将客户的知识聚合在加密空间中。通过将已建立的微表情识别方法集成到我们的框架中,我们证明了我们的方法不仅确保了强大的数据保护,而且保持了与非隐私保护机制相当的高识别性能。据我们所知,这标志着联合学习在微表情识别任务中的首次应用。
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引用次数: 0
Neural Dynamics for Constrained Bi-Objective Quadratic Programming with Applications to Scientific Computing 约束双目标二次规划的神经动力学及其在科学计算中的应用
IF 6.6 1区 计算机科学 Q1 Multidisciplinary Pub Date : 2025-04-29 DOI: 10.26599/TST.2024.9010152
Xinwei Cao;Xujin Pu;Cheng Hua;Bolin Liao;Ameer Hamza Khan
Neural dynamics is a powerful tool to solve online optimization problems and has been used in many applications. However, some problems cannot be modelled as a single objective optimization and neural dynamics method does not apply. This paper proposes the first neural dynamics model to solve bi-objective constrained quadratic program, which opens the avenue to extend the power of neural dynamics to multi-objective optimization. We rigorously prove that the designed neural dynamics is globally convergent and it converges to the optimal solution of the bi-objective optimization in Pareto sense. Illustrative examples on bi-objective geometric optimization are used to verify the correctness of the proposed method. The developed model is also tested in scientific computing with data from real industrial data with demonstrated superior to rival schemes.
神经动力学是解决在线优化问题的有力工具,已在许多应用中得到应用。然而,有些问题不能建模为单目标优化,神经动力学方法不适用。本文首次提出了求解双目标约束二次规划的神经动力学模型,为神经动力学在多目标优化中的应用开辟了道路。严格证明了所设计的神经动力学是全局收敛的,并收敛于Pareto意义下双目标优化的最优解。用双目标几何优化算例验证了所提方法的正确性。该模型在实际工业数据的科学计算中进行了验证,结果表明该模型优于其他方案。
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引用次数: 0
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Tsinghua Science and Technology
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