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Gene regulatory network reconstruction is a fundamental problem in computational biology. We recently developed an algorithm, called PANDA (Passing Attributes Between Networks for Data Assimilation), that integrates multiple sources of…

Quantitative Methods · Quantitative Biology 2017-04-18 Kimberly Glass , John Quackenbush , Jeremy Kepner

Predicting material properties has always been a challenging task in materials science. With the emergence of machine learning methodologies, new avenues have opened up. In this study, we build upon our recently developed Graph Neural…

Materials Science · Physics 2024-04-25 Si-Da Xue , Qi-Jun Hong

Unsupervised Domain Adaptation (UDA) leverages a labeled source domain to solve tasks in an unlabeled target domain. While Transformer-based methods have shown promise in UDA, their application is limited to plain Transformers, excluding…

Computer Vision and Pattern Recognition · Computer Science 2024-10-01 Wenlve Zhou , Zhiheng Zhou , Junyuan Shang , Chang Niu , Mingyue Zhang , Xiyuan Tao , Tianlei Wang

The ability of Graph Neural Networks (GNNs) to capture long-range and global topology information is limited by the scope of conventional graph Laplacian, leading to unsatisfactory performance on some datasets, particularly on heterophilic…

Machine Learning · Computer Science 2024-09-17 Qincheng Lu , Jiaqi Zhu , Sitao Luan , Xiao-Wen Chang

Graph neural networks (GNNs) achieve strong performance on graph learning tasks, but training on large-scale networks remains computationally challenging. Transferability results show that GNNs with fixed weights can generalize from smaller…

Signal Processing · Electrical Eng. & Systems 2026-04-17 Haoyu Wang , Renyuan Ma , Gonzalo Mateos , Luana Ruiz

The device-edge co-inference paradigm effectively bridges the gap between the high resource demands of Graph Neural Networks (GNNs) and limited device resources, making it a promising solution for advancing edge GNN applications. Existing…

Distributed, Parallel, and Cluster Computing · Computer Science 2025-11-18 Ao Zhou , Jianlei Yang , Tong Qiao , Yingjie Qi , Xinming Wei , Cenlin Duan , Weisheng Zhao , Chunming Hu

Attention is a general reasoning mechanism than can flexibly deal with image information, but its memory requirements had made it so far impractical for high resolution image generation. We present Grid Partitioned Attention (GPA), a new…

Computer Vision and Pattern Recognition · Computer Science 2021-07-09 Nikolay Jetchev , Gökhan Yildirim , Christian Bracher , Roland Vollgraf

In recent years, progress in adaptive graph signal processing algorithms has provided effective solutions for processing signals defined on graph structures. As a classical strategy in information theory, the Generalized Maximum Correntropy…

Signal Processing · Electrical Eng. & Systems 2026-05-27 Chong Zhang , Haiquan Zhao , Chengjin Li

Model Predictive Control (MPC) is an optimal control algorithm with strong stability and robustness guarantees. Despite its popularity in robotics and industrial applications, the main challenge in deploying MPC is its high computation…

Systems and Control · Electrical Eng. & Systems 2024-12-31 Camilo Gonzalez , Houshyar Asadi , Lars Kooijman , Chee Peng Lim

Segmenting images is critical for visual understanding but demands extensive pixel-level annotations. Foundational models have enabled new paradigms for predicting new classes guided by textual prompts, without annotations from the target…

Computer Vision and Pattern Recognition · Computer Science 2026-05-20 Gabriele Rosi , Fabio Cermelli , Carlo Masone , Barbara Caputo

Graph convolution operator of the GCN model is originally motivated from a localized first-order approximation of spectral graph convolutions. This work stands on a different view; establishing a \textit{mathematical connection between…

Machine Learning · Computer Science 2021-03-03 Lingxiao Zhao , Leman Akoglu

The alternating direction method of multipliers (ADMM) is a versatile tool for solving a wide range of constrained optimization problems, with differentiable or non-differentiable objective functions. Unfortunately, its performance is…

Machine Learning · Computer Science 2017-07-20 Zheng Xu , Mario A. T. Figueiredo , Tom Goldstein

Graph network-based simulators (GNS) have demonstrated strong potential for learning particle-based physics (such as fluids, deformable solids, and granular flows) while generalizing to unseen geometries due to their inherent inductive…

Machine Learning · Computer Science 2026-04-27 Naveen Raj Manoharan , Hassan Iqbal , Krishna Kumar

Large pre-trained vision-language (VL) models have shown significant promise in adapting to various downstream tasks. However, fine-tuning the entire network is challenging due to the massive number of model parameters. To address this…

Computer Vision and Pattern Recognition · Computer Science 2023-03-28 Jingchen Sun , Jiayu Qin , Zihao Lin , Changyou Chen

Low-rank adapters enable fine-tuning of large models with only a small number of parameters, thus reducing storage costs and minimizing the risk of catastrophic forgetting. However, they often pose optimization challenges, with poor…

Machine Learning · Computer Science 2024-12-16 Piotr Teterwak , Kate Saenko , Bryan A. Plummer , Ser-Nam Lim

Few-shot molecular property prediction (FSMPP) is essential in drug discovery and materials design, where high-quality labeled data are often scarce and expensive to obtain. Despite the promising performance of existing methods, especially…

Computational Engineering, Finance, and Science · Computer Science 2026-05-14 Zeyu Wang , Xin Zheng , Yao Lu , Shanqing Yu , Qi Xuan , Shirui Pan

In this study, we present a framework aimed at enhancing molecular property prediction through the integration of local descriptors obtained from large-scale pretrained machine learning potentials into three-dimensional graph neural…

Chemical Physics · Physics 2026-02-04 Ryoichi Uchiyama , Yuya Nakajima , Yuta Tanaka , Junji Seino

This paper presents an adaptive horizon multi-stage model-predictive control (MPC) algorithm. It establishes appropriate criteria for recursive feasibility and robust stability using the theory of input-to-state practical stability (ISpS).…

Optimization and Control · Mathematics 2023-06-23 Zawadi Mdoe , Dinesh Krishnamoorthy , Johannes Jäschke

Graph Neural Networks (GNNs) are powerful to learn the representation of graph-structured data. Most of the GNNs use the message-passing scheme, where the embedding of a node is iteratively updated by aggregating the information of its…

Machine Learning · Computer Science 2020-07-28 Shuo Zhang , Lei Xie

Parameter-efficient fine-tuning (PEFT) methods, such as LoRA, DoRA, and HiRA, enable lightweight adaptation of large pre-trained models via low-rank updates. However, existing PEFT approaches apply static, input-agnostic updates to all…

Machine Learning · Computer Science 2025-12-23 Jie Ou , Shuaihong Jiang , Yingjun Du , Cees G. M. Snoek