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Biomedical networks (or graphs) are universal descriptors for systems of interacting elements, from molecular interactions and disease co-morbidity to healthcare systems and scientific knowledge. Advances in artificial intelligence,…

Machine Learning · Computer Science 2025-02-07 Michelle M. Li , Kexin Huang , Marinka Zitnik

Healthcare artificial intelligence systems often degrade in performance when deployed across institutions, with documented performance drops and perpetuation of discriminatory patterns embedded in data. This brittleness comes, in part, from…

Machine Learning · Computer Science 2026-03-30 Munib Mesinovic , Max Buhlan , Tingting Zhu

Biomarker discovery from high-throughput transcriptomic data is crucial for advancing precision medicine. However, existing methods often neglect gene-gene regulatory relationships and lack stability across datasets, leading to conflation…

Quantitative Methods · Quantitative Biology 2025-11-18 Chaowang Lan , Jingxin Wu , Yulong Yuan , Chuxun Liu , Huangyi Kang , Caihua Liu

Many real-world complex systems, such as epidemic spreading networks and ecosystems, can be modeled as networked dynamical systems that produce multivariate time series. Learning the intrinsic dynamics from observational data is pivotal for…

Machine Learning · Computer Science 2024-12-30 Yanna Ding , Zijie Huang , Malik Magdon-Ismail , Jianxi Gao

Complex networks describe a wide range of systems in nature and society, much quoted examples including the cell, a network of chemicals linked by chemical reactions, or the Internet, a network of routers and computers connected by physical…

Statistical Mechanics · Physics 2016-08-31 Reka Albert , Albert-Laszlo Barabasi

Graph convolutional neural networks (GCNNs) are nonlinear processing tools to learn representations from network data. A key property of GCNNs is their stability to graph perturbations. Current analysis considers deterministic perturbations…

Machine Learning · Computer Science 2021-06-22 Zhan Gao , Elvin Isufi , Alejandro Ribeiro

This paper studies network resilience against structured additive perturbations to its topology. We consider dynamic networks modeled as linear time-invariant systems subject to perturbations of bounded energy satisfying specific sparsity…

Systems and Control · Electrical Eng. & Systems 2021-05-18 Shenyu Liu , Sonia Martinez , Jorge Cortes

Omics data analysis is crucial for studying complex diseases, but its high dimensionality and heterogeneity challenge classical statistical and machine learning methods. Graph neural networks have emerged as promising alternatives, yet the…

Time-varying graphs are a useful model for networks with dynamic connectivity such as vehicular networks, yet, despite their great modeling power, many important features of time-varying graphs are still poorly understood. In this paper, we…

Networking and Internet Architecture · Computer Science 2016-01-27 Qingkai Liang , Eytan Modiano

In this paper, we propose a model-simulation framework for virtual tensile strength tests of random fiber structures, as they appear in nonwoven materials. The focus is on the efficient handling with respect to the problem-inherent…

Numerical Analysis · Mathematics 2020-10-07 Marc Harmening , Nicole Marheineke , Raimund Wegener

Graph Neural Networks (GNNs) have established themselves as a key component in addressing diverse graph-based tasks. Despite their notable successes, GNNs remain susceptible to input perturbations in the form of adversarial attacks. This…

Machine Learning · Computer Science 2024-09-13 Moshe Eliasof , Davide Murari , Ferdia Sherry , Carola-Bibiane Schönlieb

Learning causal relationships between variables is a well-studied problem in statistics, with many important applications in science. However, modeling real-world systems remain challenging, as most existing algorithms assume that the…

Network science provides valuable insights across numerous disciplines including sociology, biology, neuroscience and engineering. A task of major practical importance in these application domains is inferring the network structure from…

Machine Learning · Computer Science 2019-05-01 Vassilis N. Ioannidis , Yanning Shen , Georgios B. Giannakis

Numerical simulation is a predominant tool for studying the dynamics in complex systems, but large-scale simulations are often intractable due to computational limitations. Here, we introduce the Neural Graph Simulator (NGS) for simulating…

Machine Learning · Computer Science 2024-11-15 Hoyun Choi , Sungyeop Lee , B. Kahng , Junghyo Jo

Network tomography, a classic research problem in the realm of network monitoring, refers to the methodology of inferring unmeasured network attributes using selected end-to-end path measurements. In the research community, network…

Networking and Internet Architecture · Computer Science 2020-01-10 Liang Ma , Ziyao Zhang , Mudhakar Srivatsa

Despite the rapid advancements of electrocardiogram (ECG) signal diagnosis and analysis methods through deep learning, two major hurdles still limit their clinical adoption: the lack of versatility in processing ECG signals with diverse…

Artificial Intelligence · Computer Science 2025-11-12 Yue Wang , Yuyang Xu , Renjun Hu , Fanqi Shen , Hanyun Jiang , Jun Wang , Jintai Chen , Danny Z. Chen , Jian Wu , Haochao Ying

Blood vessel segmentation and -tracing are essential tasks in many medical imaging applications. Although numerous methods exist, the prevailing segment-then-fix paradigm is fundamentally limited regarding its suitability for modeling the…

Computer Vision and Pattern Recognition · Computer Science 2026-05-04 Rajalakshmi Palaniappan , Christoph Karg , Nemesio Navarro-Arambula , Peter Hirsch , Kristin Kraeker , Lisa Mais , Dagmar Kainmueller

Topological methods for data analysis present opportunities for enforcing certain invariances of broad interest in computer vision, including view-point in activity analysis, articulation in shape analysis, and measurement invariance in…

Computer Vision and Pattern Recognition · Computer Science 2018-07-30 Anirudh Som , Kowshik Thopalli , Karthikeyan Natesan Ramamurthy , Vinay Venkataraman , Ankita Shukla , Pavan Turaga

Despite the exploding interest in graph neural networks there has been little effort to verify and improve their robustness. This is even more alarming given recent findings showing that they are extremely vulnerable to adversarial attacks…

Machine Learning · Computer Science 2019-12-20 Aleksandar Bojchevski , Stephan Günnemann

Reasonably large perturbations may push a power grid from its stable synchronous state into an undesirable state. Identifying vulnerabilities in power grids by studying power grid stability against such perturbations can aid in preventing…

Adaptation and Self-Organizing Systems · Physics 2025-08-26 Calvin Alvares , Soumitro Banerjee