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Masked Autoencoders (MAE) have shown great potentials in self-supervised pre-training for language and 2D image transformers. However, it still remains an open question on how to exploit masked autoencoding for learning 3D representations…

Computer Vision and Pattern Recognition · Computer Science 2022-10-17 Renrui Zhang , Ziyu Guo , Rongyao Fang , Bin Zhao , Dong Wang , Yu Qiao , Hongsheng Li , Peng Gao

Activity and property prediction models are the central workhorses in drug discovery and materials sciences, but currently they have to be trained or fine-tuned for new tasks. Without training or fine-tuning, scientific language models…

Biomolecules · Quantitative Biology 2023-06-19 Philipp Seidl , Andreu Vall , Sepp Hochreiter , Günter Klambauer

Modeling detector response is a key challenge in time projection chambers. We cast this problem as an unpaired point cloud translation task, between data collected from simulations and from experimental runs. Effective translation can…

Computer Vision and Pattern Recognition · Computer Science 2025-02-03 Mingyang Li , Michelle Kuchera , Raghuram Ramanujan , Adam Anthony , Curtis Hunt , Yassid Ayyad

Protein language models (PLMs) have shown promise in improving the understanding of protein sequences, contributing to advances in areas such as function prediction and protein engineering. However, training these models from scratch…

Machine Learning · Computer Science 2024-12-19 Shivasankaran Vanaja Pandi , Bharath Ramsundar

Text-based retrieval of Computer-Aided Design (CAD) models is a critical yet underexplored task for the reuse of legacy industrial designs. Existing CAD repositories are typically searched using filenames or directories, which limits the…

Computer Vision and Pattern Recognition · Computer Science 2026-05-08 Honghu Pan , Zibo Du , Daxiang Liu , Chengliang Liu , Xiaoling Luo

Developing neural models that accurately understand objects in 3D point clouds is essential for the success of robotics and autonomous driving. However, arguably due to the higher-dimensional nature of the data (as compared to images),…

Computer Vision and Pattern Recognition · Computer Science 2022-10-12 Chenxi Liu , Zhaoqi Leng , Pei Sun , Shuyang Cheng , Charles R. Qi , Yin Zhou , Mingxing Tan , Dragomir Anguelov

SpatialLM is a large language model designed to process 3D point cloud data and generate structured 3D scene understanding outputs. These outputs include architectural elements like walls, doors, windows, and oriented object boxes with…

Computer Vision and Pattern Recognition · Computer Science 2025-11-06 Yongsen Mao , Junhao Zhong , Chuan Fang , Jia Zheng , Rui Tang , Hao Zhu , Ping Tan , Zihan Zhou

We introduce Chunk-Distilled Language Modeling (CD-LM), an approach to text generation that addresses two challenges in current large language models (LLMs): the inefficiency of token-level generation, and the difficulty of adapting to new…

Computation and Language · Computer Science 2025-01-03 Yanhong Li , Karen Livescu , Jiawei Zhou

Molecular property prediction is an increasingly critical task within drug discovery and development. Typically, neural networks can learn molecular properties using graph-based, language-based or feature-based methods. Recent advances in…

Machine Learning · Computer Science 2025-07-31 Philip Spence , Brooks Paige , Anne Osbourn

In the burgeoning field of natural language processing (NLP), Neural Topic Models (NTMs) , Large Language Models (LLMs) and Diffusion model have emerged as areas of significant research interest. Despite this, NTMs primarily utilize…

Computation and Language · Computer Science 2023-12-27 Weijie Xu , Wenxiang Hu , Fanyou Wu , Srinivasan Sengamedu

With the prospect of automating a number of chemical tasks with high fidelity, chemical language processing models are emerging at a rapid speed. Here, we present a cloud-based real-time platform that allows users to virtually screen…

Multilingual Large Language Models (LLMs) can process many languages, yet how they internally represent this diversity remains unclear. Do they form shared multilingual representations with language-specific decoding, and if so, why does…

Computation and Language · Computer Science 2026-02-10 Abir Harrasse , Florent Draye , Punya Syon Pandey , Zhijing Jin , Bernhard Schölkopf

Attention-based recurrent neural encoder-decoder models present an elegant solution to the automatic speech recognition problem. This approach folds the acoustic model, pronunciation model, and language model into a single network and…

Audio and Speech Processing · Electrical Eng. & Systems 2018-11-08 Shubham Toshniwal , Anjuli Kannan , Chung-Cheng Chiu , Yonghui Wu , Tara N Sainath , Karen Livescu

Optimizing molecular design and discovering novel chemical structures to meet certain objectives, such as quantitative estimates of the drug-likeness score (QEDs), is NP-hard due to the vast combinatorial design space of discrete molecular…

Machine Learning · Computer Science 2023-02-23 Mohammad Sajjad Ghaemi , Hang Hu , Anguang Hu , Hsu Kiang Ooi

Large Language Models (LLMs) have significantly advanced molecular discovery, but existing multimodal molecular architectures fundamentally rely on autoregressive (AR) backbones. This strict left-to-right inductive bias is sub-optimal for…

Artificial Intelligence · Computer Science 2026-04-08 Seohyeon Shin , HanJun Choi , Jun-Hyung Park , Hong Kook Kim , Mansu Kim

This paper presents the Text Encoding Diffusion Model (TEncDM), a novel approach to diffusion modeling that operates in the space of pre-trained language model encodings. In contrast to traditionally used embeddings, encodings integrate…

Machine learning has transformed material discovery for inorganic compounds and small molecules, yet polymers remain largely inaccessible to these methods. While data scarcity is often cited as the primary bottleneck, we demonstrate that…

Machine Learning · Computer Science 2025-12-09 Jihun Ahn , Gabriella Pasya Irianti , Vikram Thapar , Su-Mi Hur

Semantic segmentation of raw 3D point clouds is an essential component in 3D scene analysis, but it poses several challenges, primarily due to the non-Euclidean nature of 3D point clouds. Although, several deep learning based approaches…

Computer Vision and Pattern Recognition · Computer Science 2020-12-01 Saqib Ali Khan , Yilei Shi , Muhammad Shahzad , Xiao Xiang Zhu

LiDAR point clouds are fundamental to various applications, yet the extreme sparsity of high-precision geometric details hinders efficient context modeling, thereby limiting the compression speed and performance of existing methods. To…

Computer Vision and Pattern Recognition · Computer Science 2026-03-27 Pengpeng Yu , Haoran Li , Runqing Jiang , Dingquan Li , Jing Wang , Liang Lin , Yulan Guo

Clinical oncology generates vast, unstructured data that often contain inconsistencies, missing information, and ambiguities, making it difficult to extract reliable insights for data-driven decision-making. General-purpose large language…

Computation and Language · Computer Science 2025-03-12 Morteza Rohanian , Tarun Mehra , Nicola Miglino , Farhad Nooralahzadeh , Michael Krauthammer , Andreas Wicki
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