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Molecular representation learning lays the foundation for drug discovery. However, existing methods suffer from poor out-of-distribution (OOD) generalization, particularly when data for training and testing originate from different…

Machine Learning · Computer Science 2023-10-24 Xiang Zhuang , Qiang Zhang , Keyan Ding , Yatao Bian , Xiao Wang , Jingsong Lv , Hongyang Chen , Huajun Chen

Drug discovery can be viewed as a combinatorial search over an immense chemical space, motivating the development of deep generative models for de novo molecular design. Among these, GPT-based molecular language models (MLM) have shown…

Machine Learning · Computer Science 2026-02-02 Qianwei Yang , Dong Xu , Zhangfan Yang , Sisi Yuan , Zexuan Zhu , Jianqiang Li , Junkai Ji

Automated ultrasonic weld inspection remains a significant challenge in the nondestructive evaluation (NDE) community to factors such as limited training data (due to the complexity of curating experimental specimens or high-fidelity…

Machine Learning · Computer Science 2025-10-20 Joshua R. Tempelman , Adam J. Wachtor , Eric B. Flynn

Denoising diffusion models have shown great potential in multiple research areas. Existing diffusion-based generative methods on de novo 3D molecule generation face two major challenges. Since majority heavy atoms in molecules allow…

Machine Learning · Computer Science 2024-04-23 Can Xu , Haosen Wang , Weigang Wang , Pengfei Zheng , Hongyang Chen

While Masked Diffusion Language Models (MDLMs) relying on token masking and unmasking have shown promise in language modeling, their computational efficiency and generation flexibility remain constrained by the masking paradigm. In this…

Computation and Language · Computer Science 2026-03-26 Fangyu Ding , Ding Ding , Sijin Chen , Kaibo Wang , Peng Xu , Zijin Feng , Haoli Bai , Kai Han , Youliang Yan , Binhang Yuan , Jiacheng Sun

Diffusion large language models (dLLMs) offer a promising paradigm for parallel text generation, but in practice they face an accuracy-parallelism trade-off, where increasing tokens per forward (TPF) often degrades generation quality.…

Computation and Language · Computer Science 2026-05-12 Haoyang Zhou , Li Kong , Shijie Ren , Xiting Wang , Shuang Liang , Guowei Wang , Zhenxuan Pan

The evolution of semantic segmentation has long been dominated by learning more discriminative image representations for classifying each pixel. Despite the prominent advancements, the priors of segmentation masks themselves, e.g.,…

Computer Vision and Pattern Recognition · Computer Science 2023-06-23 Zeqiang Lai , Yuchen Duan , Jifeng Dai , Ziheng Li , Ying Fu , Hongsheng Li , Yu Qiao , Wenhai Wang

While diffusion models can learn complex distributions, sampling requires a computationally expensive iterative process. Existing distillation methods enable efficient sampling, but have notable limitations, such as performance degradation…

Machine Learning · Computer Science 2024-12-09 Sirui Xie , Zhisheng Xiao , Diederik P Kingma , Tingbo Hou , Ying Nian Wu , Kevin Patrick Murphy , Tim Salimans , Ben Poole , Ruiqi Gao

Reparameterized diffusion models (RDMs) have recently matched autoregressive methods in protein generation, motivating their use for challenging tasks such as designing membrane proteins, which possess interleaved soluble and transmembrane…

Biomolecules · Quantitative Biology 2025-09-30 Shrey Goel , Peregrine M. Schray , Yinuo Zhang , Sophia Vincoff , Huong T. Kratochvil , Pranam Chatterjee

Diffusion generative models have emerged as a powerful framework for addressing problems in structural biology and structure-based drug design. These models operate directly on 3D molecular structures. Due to the unfavorable scaling of…

Biomolecules · Quantitative Biology 2024-05-10 Ian Dunn , David Ryan Koes

Diffusion models (DMs) are a powerful generative framework that have attracted significant attention in recent years. However, the high computational cost of training DMs limits their practical applications. In this paper, we start with a…

Machine Learning · Computer Science 2024-04-12 Tianshuo Xu , Peng Mi , Ruilin Wang , Yingcong Chen

Vision-based motion capture solutions often struggle with occlusions, which result in the loss of critical joint information and hinder accurate 3D motion reconstruction. Other wearable alternatives also suffer from noisy or unstable data,…

Computer Vision and Pattern Recognition · Computer Science 2026-03-10 Junkun Jiang , Jie Chen , Ho Yin Au , Jingyu Xiang

Decentralized learning (DL) enables collaborative machine learning (ML) without a central server, making it suitable for settings where training data cannot be centrally hosted. We introduce Mosaic Learning, a DL framework that decomposes…

Diffusion language models enable parallel token generation through block-wise decoding, but their irreversible commitments can lead to stagnation, where the reverse diffusion process fails to make further progress under a suboptimal…

Computation and Language · Computer Science 2026-02-03 Xinyun Wang , Min Zhang , Sen Cui , Zhikang Chen , Bo Jiang , Kun Kuang , Mingbao Lin

Despite the remarkable success of diffusion models in text-to-image generation, their effectiveness in grounded visual editing and compositional control remains challenging. Motivated by advances in self-supervised learning and in-context…

Computer Vision and Pattern Recognition · Computer Science 2025-07-21 Shreya Kadambi , Risheek Garrepalli , Shubhankar Borse , Munawar Hyatt , Fatih Porikli

By formulating data samples' formation as a Markov denoising process, diffusion models achieve state-of-the-art performances in a collection of tasks. Recently, many variants of diffusion models have been proposed to enable controlled…

Machine Learning · Computer Science 2023-04-17 Hengtong Zhang , Tingyang Xu

Significant disparities between the features of natural images and those inherent to histopathological images make it challenging to directly apply and transfer pre-trained models from natural images to histopathology tasks. Moreover, the…

Computer Vision and Pattern Recognition · Computer Science 2024-12-17 Zhenfeng Zhuang , Min Cen , Yanfeng Li , Fangyu Zhou , Lequan Yu , Baptiste Magnier , Liansheng Wang

The revolution in materials in the past century was built on a knowledge of the atomic arrangements and the structure-property relationship. The sine qua non for obtaining quantitative structural information is single crystal…

Computational Physics · Physics 2023-12-27 Gabe Guo , Judah Goldfeder , Ling Lan , Aniv Ray , Albert Hanming Yang , Boyuan Chen , Simon JL Billinge , Hod Lipson

Any order generation of discrete data using masked diffusion models (MDMs) offers a compelling alternative to traditional autoregressive models, especially in domains that lack a natural causal ordering of data. However, current popular…

Since its foundations, more than one hundred years ago, the field of structural biology has strived to understand and analyze the properties of molecules and their interactions by studying the structure that they take in 3D space. However,…

Biomolecules · Quantitative Biology 2023-02-27 Gabriele Corso