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The RNA inverse folding problem, a key challenge in RNA design, involves identifying nucleotide sequences that can fold into desired secondary structures, which are critical for ensuring molecular stability and function. The inherent…

Computer Vision and Pattern Recognition · Computer Science 2025-12-04 Guang Yang , Lei Fan

We have developed a neural network model to perform event reconstruction of Compton telescopes. This model reconstructs events that consist of three or more interactions in a detector. It is essential for Compton telescopes to determine the…

Instrumentation and Methods for Astrophysics · Physics 2022-06-22 Satoshi Takashima , Hirokazu Odaka , Hiroki Yoneda , Yuto Ichinohe , Aya Bamba , Tsuguo Aramaki , Yoshiyuki Inoue

As the particle physics community needs higher and higher precisions in order to test our current model of the subatomic world, larger and larger datasets are necessary. With upgrades scheduled for the detectors of colliding-beam…

Data Analysis, Statistics and Probability · Physics 2025-09-09 Fotis I. Giasemis

This paper introduces a scalable algorithmic framework (HyperEF) for spectral coarsening (decomposition) of large-scale hypergraphs by exploiting hyperedge effective resistances. Motivated by the latest theoretical framework for…

Machine Learning · Computer Science 2022-12-06 Ali Aghdaei , Zhuo Feng

We propose masked particle modeling (MPM) as a self-supervised method for learning generic, transferable, and reusable representations on unordered sets of inputs for use in high energy physics (HEP) scientific data. This work provides a…

High Energy Physics - Phenomenology · Physics 2024-07-12 Tobias Golling , Lukas Heinrich , Michael Kagan , Samuel Klein , Matthew Leigh , Margarita Osadchy , John Andrew Raine

At high energy physics experiments, processing billions of records of structured numerical data from collider events to a few statistical summaries is a common task. The data processing is typically more complex than standard query…

Data Analysis, Statistics and Probability · Physics 2019-10-22 Joosep Pata , Maria Spiropulu

Hypergraphs provide a superior modeling framework for representing complex multidimensional relationships in the context of real-world interactions that often occur in groups, overcoming the limitations of traditional homogeneous graphs.…

Machine Learning · Computer Science 2025-02-13 Daeyoung Roh , Donghee Han , Daehee Kim , Keejun Han , Mun Yi

The use of machine learning algorithms is an attractive way to produce very fast detector simulations for scattering reactions that can otherwise be computationally expensive. Here we develop a factorised approach where we deal with each…

Data Analysis, Statistics and Probability · Physics 2022-07-26 D. Darulis , R. Tyson , D. G. Ireland , D. I. Glazier , B. McKinnon , P. Pauli

Hypercomplex signal processing (HSP) provides state-of-the-art tools to handle multidimensional signals by harnessing intrinsic correlation of the signal dimensions through Clifford algebra. Recently, the hypercomplex representation of the…

Signal Processing · Electrical Eng. & Systems 2024-04-24 Roman Jacome , Kumar Vijay Mishra , Brian M. Sadler , Henry Arguello

Long-term memory is essential for conversational agents to maintain coherence, track persistent tasks, and provide personalized interactions across extended dialogues. However, existing approaches as Retrieval-Augmented Generation (RAG) and…

Computation and Language · Computer Science 2026-04-13 Juwei Yue , Chuanrui Hu , Jiawei Sheng , Zuyi Zhou , Wenyuan Zhang , Tingwen Liu , Li Guo , Yafeng Deng

Hypergraphs offer a generalized framework for capturing high-order relationships between entities and have been widely applied in various domains, including healthcare, social networks, and bioinformatics. Hypergraph neural networks, which…

Machine Learning · Computer Science 2025-12-03 Akash Choudhuri , Yongjian Zhong , Bijaya Adhikari

In this paper, we explore a novel method for tomographic image reconstruction in the field of SPECT imaging. Deep Learning methodologies and more specifically deep convolutional neural networks (CNN) are employed in the new reconstruction…

Machine Learning · Computer Science 2020-10-20 Charalambos Chrysostomou , Loizos Koutsantonis , Christos Lemesios , Costas N. Papanicolas

Hypergraphs serve as an effective model for depicting complex connections in various real-world scenarios, from social to biological networks. The development of Hypergraph Neural Networks (HGNNs) has emerged as a valuable method to manage…

Machine Learning · Computer Science 2024-06-17 Shuai Wang , David W. Zhang , Jia-Hong Huang , Stevan Rudinac , Monika Kackovic , Nachoem Wijnberg , Marcel Worring

Advances in deep learning models have revolutionized the study of biomolecule systems and their mechanisms. Graph representation learning, in particular, is important for accurately capturing the geometric information of biomolecules at…

Quantitative Methods · Quantitative Biology 2023-04-07 Xinye Xiong , Bingxin Zhou , Yu Guang Wang

Inspired by the recently remarkable successes of Sparse Representation (SR), Collaborative Representation (CR) and sparse graph, we present a novel hypergraph model named Regression-based Hypergraph (RH) which utilizes the regression models…

Computer Vision and Pattern Recognition · Computer Science 2016-03-15 Sheng Huang , Dan Yang , Bo Liu , Xiaohong Zhang

We introduce the Hierarchical Unified Graph Representation (HUGR): a novel graph based intermediate representation for mixed quantum-classical programs. HUGR's design features high expressivity and extensibility to capture the capabilities…

One of the key tasks of any particle collider is measurement. In practice, this is often done by fitting data to a simulation, which depends on many parameters. Sometimes, when the effects of varying different parameters are highly…

High Energy Physics - Phenomenology · Physics 2021-10-12 Forrest Flesher , Katherine Fraser , Charles Hutchison , Bryan Ostdiek , Matthew D. Schwartz

The high-luminosity upgrade of the LHC will come with unprecedented physics and computing challenges. One of these challenges is the accurate reconstruction of particles in events with up to 200 simultaneous proton-proton interactions. The…

Instrumentation and Detectors · Physics 2021-06-04 Shah Rukh Qasim , Kenneth Long , Jan Kieseler , Maurizio Pierini , Raheel Nawaz

Learning expressive representations for high-dimensional yet sparse features has been a longstanding problem in information retrieval. Though recent deep learning methods can partially solve the problem, they often fail to handle the…

Information Retrieval · Computer Science 2023-05-30 Kaize Ding , Albert Jiongqian Liang , Bryan Perrozi , Ting Chen , Ruoxi Wang , Lichan Hong , Ed H. Chi , Huan Liu , Derek Zhiyuan Cheng

A novel method, utilizing convolutional neural networks (CNNs), is proposed to reconstruct hyperspectral cubes from computed tomography imaging spectrometer (CTIS) images. Current reconstruction algorithms are usually subject to long…

Image and Video Processing · Electrical Eng. & Systems 2022-03-16 Wei-Chih Huang , Mads Svanborg Peters , Mads Juul Ahlebaek , Mads Toudal Frandsen , René Lynge Eriksen , Bjarke Jørgensen