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Learning effective protein representations is critical in a variety of tasks in biology such as predicting protein function or structure. Existing approaches usually pretrain protein language models on a large number of unlabeled amino acid…

Machine Learning · Computer Science 2023-01-31 Zuobai Zhang , Minghao Xu , Arian Jamasb , Vijil Chenthamarakshan , Aurelie Lozano , Payel Das , Jian Tang

We introduce Group equivariant Convolutional Neural Networks (G-CNNs), a natural generalization of convolutional neural networks that reduces sample complexity by exploiting symmetries. G-CNNs use G-convolutions, a new type of layer that…

Machine Learning · Computer Science 2016-06-06 Taco S. Cohen , Max Welling

Molecular interactions often involve high-order relationships that cannot be fully captured by traditional graph-based models limited to pairwise connections. Hypergraphs naturally extend graphs by enabling multi-way interactions, making…

Machine Learning · Computer Science 2025-05-12 Tien Dang , Truong-Son Hy

Recent advances in 3D perception have shown impressive progress in understanding geometric structures of 3Dshapes and even scenes. Inspired by these advances in geometric understanding, we aim to imbue image-based perception with…

Computer Vision and Pattern Recognition · Computer Science 2021-12-21 Ji Hou , Saining Xie , Benjamin Graham , Angela Dai , Matthias Nießner

Numerous 6D pose estimation methods have been proposed that employ end-to-end regression to directly estimate the target pose parameters. Since the visible features of objects are implicitly influenced by their poses, the network allows…

Computer Vision and Pattern Recognition · Computer Science 2023-08-23 Jianqiu Chen , Mingshan Sun , Ye Zheng , Tianpeng Bao , Zhenyu He , Donghai Li , Guoqiang Jin , Rui Zhao , Liwei Wu , Xiaoke Jiang

This paper deals with the geometric multi-model fitting from noisy, unstructured point set data (e.g., laser scanned point clouds). We formulate multi-model fitting problem as a sequential decision making process. We then use a deep…

Computer Vision and Pattern Recognition · Computer Science 2018-12-31 Zongliang Zhang , Hongbin Zeng , Jonathan Li , Yiping Chen , Chenhui Yang , Cheng Wang

Molecular dynamic simulations are important in computational physics, chemistry, material, and biology. Machine learning-based methods have shown strong abilities in predicting molecular energy and properties and are much faster than DFT…

Molecular Networks · Quantitative Biology 2023-02-03 Zheng Yuan , Yaoyun Zhang , Chuanqi Tan , Wei Wang , Fei Huang , Songfang Huang

Equivariant neural networks have proven to be effective for tasks with known underlying symmetries. However, optimizing equivariant networks can be tricky and best training practices are less established than for standard networks. In…

Machine Learning · Computer Science 2025-11-04 YuQing Xie , Tess Smidt

Real-world geometry and 3D vision tasks are replete with challenging symmetries that defy tractable analytical expression. In this paper, we introduce Neural Isometries, an autoencoder framework which learns to map the observation space to…

Computer Vision and Pattern Recognition · Computer Science 2024-10-31 Thomas W. Mitchel , Michael Taylor , Vincent Sitzmann

This work presents a framework to predict near-optimal anisotropic spacing functions suitable to perform simulations with unseen operating conditions or geometric configurations. The strategy consists of utilising the vast amount of high…

Computational Engineering, Finance, and Science · Computer Science 2025-04-02 Callum Lock , Oubay Hassan , Ruben Sevilla , Jason Jones

Machine learning techniques are essential tools to compute efficient, yet accurate, force fields for atomistic simulations. This approach has recently been extended to incorporate quantum computational methods, making use of variational…

Traditional linear methods for forecasting multivariate time series are not able to satisfactorily model the non-linear dependencies that may exist in non-Gaussian series. We build on the theory of learning vector-valued functions in the…

Machine Learning · Computer Science 2017-06-28 Magda Gregorová , Alexandros Kalousis , Stéphane Marchand-Maillet

We integrate two powerful ideas, geometry and deep visual representation learning, into recurrent network architectures for mobile visual scene understanding. The proposed networks learn to "lift" and integrate 2D visual features over time…

Computer Vision and Pattern Recognition · Computer Science 2019-04-10 Hsiao-Yu Fish Tung , Ricson Cheng , Katerina Fragkiadaki

Invariant and equivariant models incorporate the symmetry of an object to be estimated (here non-parametric regression functions $f : \mathcal{X} \rightarrow \mathbb{R}$). These models perform better (with respect to $L^2$ loss) and are…

Machine Learning · Statistics 2022-05-31 Louis G. Christie , John A. D. Aston

Recently, graph neural networks (GNNs) have proved to be suitable in tasks on unstructured data. Particularly in tasks as community detection, node classification, and link prediction. However, most GNN models still operate with static…

Machine Learning · Computer Science 2019-06-07 Darwin Saire Pilco , Adín Ramírez Rivera

Graph neural networks have become a powerful framework for learning complex structure-property relationships and fast screening of chemical compounds. Recently proposed methods have demonstrated that using 3D geometry information of the…

Biomolecules · Quantitative Biology 2022-03-10 Ali Raza , E. Adrian Henle , Xiaoli Fern

Deep neural networks have shown great potential in image reconstruction problems in Euclidean space. However, many reconstruction problems involve imaging physics that are dependent on the underlying non-Euclidean geometry. In this paper,…

Image and Video Processing · Electrical Eng. & Systems 2022-10-07 Xiajun Jiang , Sandesh Ghimire , Jwala Dhamala , Zhiyuan Li , Prashnna Kumar Gyawali , Linwei Wang

Convolutional Neural Networks (CNN) possess many positive qualities when it comes to spatial raster data. Translation invariance enables CNNs to detect features regardless of their position in the scene. However, in some domains, like…

Machine Learning · Computer Science 2020-07-13 Arnas Uselis , Mantas Lukoševičius , Lukas Stasytis

We review a novel neural network architecture called lattice gauge equivariant convolutional neural networks (L-CNNs), which can be applied to generic machine learning problems in lattice gauge theory while exactly preserving gauge…

High Energy Physics - Lattice · Physics 2021-11-09 Matteo Favoni , Andreas Ipp , David I. Müller , Daniel Schuh

Optimal statistical decisions should transcend the language used to describe them. Yet, how do we guarantee that the choice of coordinates - the parameterisation of an optimisation problem - does not subtly dictate the solution? This paper…

Other Computer Science · Computer Science 2025-05-06 William Cook
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