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Molecular property prediction is a fundamental task in computational chemistry with critical applications in drug discovery and materials science. While recent works have explored Large Language Models (LLMs) for this task, they primarily…

Computer Vision and Pattern Recognition · Computer Science 2025-07-08 Deepan Adak , Yogesh Singh Rawat , Shruti Vyas

Diffusion models have exhibited substantial success in text-to-image generation. However, they often encounter challenges when dealing with complex and dense prompts involving multiple objects, attribute binding, and long descriptions. In…

Computer Vision and Pattern Recognition · Computer Science 2024-08-28 Mushui Liu , Yuhang Ma , Yang Zhen , Jun Dan , Yunlong Yu , Zeng Zhao , Zhipeng Hu , Bai Liu , Changjie Fan

Pre-trained language models (PLMs) have achieved great success in NLP and have recently been used for tasks in computational semantics. However, these tasks do not fully benefit from PLMs since meaning representations are not explicitly…

Computation and Language · Computer Science 2023-06-02 Chunliu Wang , Huiyuan Lai , Malvina Nissim , Johan Bos

The emergence of Large Language Models (LLMs) has achieved tremendous success in the field of Natural Language Processing owing to diverse training paradigms that empower LLMs to effectively capture intricate linguistic patterns and…

Information Retrieval · Computer Science 2024-07-04 Lemei Zhang , Peng Liu , Yashar Deldjoo , Yong Zheng , Jon Atle Gulla

The emergence of Pre-trained Language Models (PLMs) has achieved tremendous success in the field of Natural Language Processing (NLP) by learning universal representations on large corpora in a self-supervised manner. The pre-trained models…

Information Retrieval · Computer Science 2023-09-14 Peng Liu , Lemei Zhang , Jon Atle Gulla

Models that accurately predict properties based on chemical structure are valuable tools in drug discovery. However, for many properties, public and private training sets are typically small, and it is difficult for the models to generalize…

Quantitative Methods · Quantitative Biology 2022-11-08 Oscar Méndez-Lucio , Christos Nicolaou , Berton Earnshaw

Text generation has become one of the most important yet challenging tasks in natural language processing (NLP). The resurgence of deep learning has greatly advanced this field by neural generation models, especially the paradigm of…

Computation and Language · Computer Science 2021-05-26 Junyi Li , Tianyi Tang , Wayne Xin Zhao , Ji-Rong Wen

Large language models (LLMs) have brought significant advancements to code generation, benefiting both novice and experienced developers. However, their training using unsanitized data from open-source repositories, like GitHub, introduces…

Software Engineering · Computer Science 2023-10-26 Jiexin Wang , Liuwen Cao , Xitong Luo , Zhiping Zhou , Jiayuan Xie , Adam Jatowt , Yi Cai

Recent advancements for large-scale pre-training with neural signals such as electroencephalogram (EEG) have shown promising results, significantly boosting the development of brain-computer interfaces (BCIs) and healthcare. However, these…

Signal Processing · Electrical Eng. & Systems 2025-03-21 Wei-Bang Jiang , Yansen Wang , Bao-Liang Lu , Dongsheng Li

Designing a neural network architecture for molecular representation is crucial for AI-driven drug discovery and molecule design. In this work, we propose a new framework for molecular representation learning. Our contribution is threefold:…

Machine Learning · Computer Science 2022-10-18 Jiye Kim , Seungbeom Lee , Dongwoo Kim , Sungsoo Ahn , Jaesik Park

Large language models (LLMs) have large potential for molecular optimization, as they can gather external chemistry tools and enable collaborative interactions to iteratively refine molecular candidates. However, this potential remains…

Artificial Intelligence · Computer Science 2025-05-28 Hyomin Kim , Yunhui Jang , Sungsoo Ahn

Large language models (LLMs) have demonstrated impressive capabilities in natural language generation. However, their output quality can be inconsistent, posing challenges for generating natural language from logical forms (LFs). This task…

Computation and Language · Computer Science 2023-09-22 Levon Haroutunian , Zhuang Li , Lucian Galescu , Philip Cohen , Raj Tumuluri , Gholamreza Haffari

In the scope of drug discovery, the molecular design aims to identify novel compounds from the chemical space where the potential drug-like molecules are estimated to be in the order of 10^60 - 10^100. Since this search task is…

Machine Learning · Computer Science 2022-10-25 Wenlu Wang , Ye Wang , Honggang Zhao , Simone Sciabola

Artificial intelligence has demonstrated immense potential in scientific research. Within molecular science, it is revolutionizing the traditional computer-aided paradigm, ushering in a new era of deep learning. With recent progress in…

Biomolecules · Quantitative Biology 2024-03-22 Yi Xiao , Xiangxin Zhou , Qiang Liu , Liang Wang

Small molecules are essential to drug discovery, and graph-language models hold promise for learning molecular properties and functions from text. However, existing molecule-text datasets are limited in scale and informativeness,…

Biomolecules · Quantitative Biology 2025-06-03 Yihan Zhu , Gang Liu , Eric Inae , Meng Jiang

We introduce UniGen, a unified multimodal large language model (MLLM) capable of image understanding and generation. We study the full training pipeline of UniGen from a data-centric perspective, including multi-stage pre-training,…

Computer Vision and Pattern Recognition · Computer Science 2025-05-21 Rui Tian , Mingfei Gao , Mingze Xu , Jiaming Hu , Jiasen Lu , Zuxuan Wu , Yinfei Yang , Afshin Dehghan

Conventional research on large language models (LLMs) has primarily focused on refining output distributions, while paying less attention to the decoding process that transforms these distributions into final responses. Recent advances,…

Computation and Language · Computer Science 2025-10-28 Chenheng Zhang , Tianqi Du , Jizhe Zhang , Mingqing Xiao , Yifei Wang , Yisen Wang , Zhouchen Lin

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

The integration of molecular and natural language representations has emerged as a focal point in molecular science, with recent advancements in Language Models (LMs) demonstrating significant potential for comprehensive modeling of both…

Biomolecules · Quantitative Biology 2025-03-19 Qizhi Pei , Rui Yan , Kaiyuan Gao , Jinhua Zhu , Lijun Wu

Although Large Language Models (LLMs) exhibit remarkable adaptability across domains, these models often fall short in structured knowledge extraction tasks such as named entity recognition (NER). This paper explores an innovative,…

Computation and Language · Computer Science 2024-06-11 Yuzhao Heng , Chunyuan Deng , Yitong Li , Yue Yu , Yinghao Li , Rongzhi Zhang , Chao Zhang