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Recent neural-network-based architectures for image segmentation make extensive usage of feature forwarding mechanisms to integrate information from multiple scales. Although yielding good results, even deeper architectures and alternative…

Computer Vision and Pattern Recognition · Computer Science 2018-06-06 Fausto Milletari , Nicola Rieke , Maximilian Baust , Marco Esposito , Nassir Navab

Gain Cell memory (GCRAM) offers higher density and lower power than SRAM, making it a promising candidate for on-chip memory in domain-specific accelerators. To support workloads with varying traffic and lifetime metrics, GCRAM also offers…

We investigate time-dependent data analysis from the perspective of recurrent kernel machines, from which models with hidden units and gated memory cells arise naturally. By considering dynamic gating of the memory cell, a model closely…

Machine Learning · Statistics 2019-10-11 Kevin J Liang , Guoyin Wang , Yitong Li , Ricardo Henao , Lawrence Carin

Granular flows govern many natural and industrial processes, yet their interior kinematics and mechanics remain largely unobservable, as experiments access only boundaries or free surfaces. Conventional numerical simulations are…

Computational Engineering, Finance, and Science · Computer Science 2026-05-26 Xuyang Li , Rui Li , Teng Man , Yimin Lu

Molecular dynamics (MD) is a powerful technique for studying microscopic phenomena, but its computational cost has driven significant interest in the development of deep learning-based surrogate models. We introduce generative modeling of…

Biomolecules · Quantitative Biology 2024-09-27 Bowen Jing , Hannes Stärk , Tommi Jaakkola , Bonnie Berger

Scaling conditional memory offers a promising way to increase language-model capacity, but existing methods such as Engram learn large memory tables from scratch during pre-training, making memory scaling expensive and sometimes…

Computation and Language · Computer Science 2026-05-21 Runxi Cheng , Yuchen Guan , Yongxian Wei , Qianpu Sun , Qixiu Li , Sinan Du , Feng Xiong , Chun Yuan , Yan Lu , Yeyun Gong

Foundation models are deep neural networks (such as GPT-5, Gemini~3, and Opus~4) trained on large datasets that can perform diverse downstream tasks -- text and code generation, question answering, summarization, image classification, and…

Machine Learning · Computer Science 2026-05-01 Logan G Wright , Tianyu Wang , Tatsuhiro Onodera , Peter L. McMahon

Gene Regulatory Network (GRN) inference is essential for understanding complex cellular mechanisms, rendered tractable through single-cell transcriptomic data. With the emergence of single-cell Foundation Models (scFMs), enhanced…

Machine Learning · Computer Science 2026-05-12 Jiaxin Qi , Hang Li , Yan Cui , Yuhua Zheng , Jianqiang Huang

High-fidelity Monte Carlo simulations and complex inverse problems, such as mapping smeared experimental observations to ground-truth states, are computationally intensive yet essential for robust data analysis. Conditional Flow Matching…

Machine Learning · Computer Science 2026-04-03 Zeyu Xia , Tyler Kim , Trevor Reed , Judy Fox , Geoffrey Fox , Adam Szczepaniak

Graph neural networks (GNNs) have emerged as powerful tools for learning protein structures by capturing spatial relationships at the residue level. However, existing GNN-based methods often face challenges in learning multiscale…

Machine Learning · Computer Science 2026-02-03 Shih-Hsin Wang , Yuhao Huang , Taos Transue , Justin Baker , Jonathan Forstater , Thomas Strohmer , Bao Wang

Despite recent advances, goal-directed generation of structured discrete data remains challenging. For problems such as program synthesis (generating source code) and materials design (generating molecules), finding examples which satisfy…

Machine Learning · Computer Science 2020-10-26 Amina Mollaysa , Brooks Paige , Alexandros Kalousis

Deep neural networks excel in mapping genomic DNA sequences to associated readouts (e.g., protein-DNA binding). Beyond prediction, the goal of these networks is to reveal to scientists the underlying motifs (and their syntax) which drive…

Genomics · Quantitative Biology 2024-10-10 Alex M. Tseng , Gokcen Eraslan , Tommaso Biancalani , Gabriele Scalia

Despite recent progress in time-series foundation models, challenges persist in improving representation learning and adapting to diverse downstream tasks. We introduce a General Time-series Model (GTM), which advances representation…

Machine Learning · Computer Science 2026-03-13 Cheng He , Xu Huang , Gangwei Jiang , Zhaoyi Li , Defu Lian , Hong Xie , Enhong Chen , Xijie Liang , Zengrong Zheng , Patrick P. C. Lee

Recent works have shown that Large Language Models (LLMs) could empower traditional neuro-symbolic models via programming capabilities to translate language into module descriptions, thus achieving strong visual reasoning results while…

Computer Vision and Pattern Recognition · Computer Science 2023-11-09 Zhenfang Chen , Rui Sun , Wenjun Liu , Yining Hong , Chuang Gan

Logistic regression (LR) is widely used in clinical prediction because it is simple to deploy and easy to interpret. Nevertheless, being a linear model, LR has limited expressive capability and often has unsatisfactory performance.…

Machine Learning · Computer Science 2019-07-31 Zhicheng Cui , Bradley A Fritz , Christopher R King , Michael S Avidan , Yixin Chen

The conditional generation of proteins with desired functions is a key goal for generative models. Existing methods based on prompting of protein language models (PLMs) can generate proteins conditioned on a target functionality, such as a…

Biomolecules · Quantitative Biology 2025-06-13 Jason Yang , Aadyot Bhatnagar , Jeffrey A. Ruffolo , Ali Madani

For various optimization methods, gradient descent-based algorithms can achieve outstanding performance and have been widely used in various tasks. Among those commonly used algorithms, ADAM owns many advantages such as fast convergence…

Neural and Evolutionary Computing · Computer Science 2021-05-05 Jiyang Bai , Yuxiang Ren , Jiawei Zhang

Foundation models, first introduced in 2021, refer to large-scale pretrained models (e.g., large language models (LLMs) and vision-language models (VLMs)) that learn from extensive unlabeled datasets through unsupervised methods, enabling…

Structural biology relies on accurate three-dimensional biomolecular structures to advance our understanding of biological functions, disease mechanisms, and therapeutics. While recent advances in deep learning have enabled the development…

Biomolecules · Quantitative Biology 2025-04-02 Yizhen Luo , Jiashuo Wang , Siqi Fan , Zaiqing Nie

State-of-the-art face recognition (FR) models often experience a significant performance drop when dealing with facial images in surveillance scenarios where images are in low quality and often corrupted with noise. Leveraging facial…

Computer Vision and Pattern Recognition · Computer Science 2023-12-18 Md Mahedi Hasan , Shoaib Meraj Sami , Nasser Nasrabadi