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Chemical representations derived from deep learning are emerging as a powerful tool in areas such as drug discovery and materials innovation. Currently, this methodology has three major limitations - the cost of representation generation,…

Chemical Physics · Physics 2018-09-18 Clyde Fare , Lukas Turcani , Edward O. Pyzer-Knapp

The aim of this paper is to propose a method for tagging named entities (NE), using natural language processing techniques. Beyond their literal meaning, named entities are frequently subject to metonymy. We show the limits of current NE…

Artificial Intelligence · Computer Science 2007-12-08 Thierry Poibeau

As the amount and variety of energetics research increases, machine aware topic identification is necessary to streamline future research pipelines. The makeup of an automatic topic identification process consists of creating document…

Computation and Language · Computer Science 2022-06-03 Monica Puerto , Mason Kellett , Rodanthi Nikopoulou , Mark D. Fuge , Ruth Doherty , Peter W. Chung , Zois Boukouvalas

Chemical reactions are the fundamental building blocks of drug design and organic chemistry research. In recent years, there has been a growing need for a large-scale deep-learning framework that can efficiently capture the basic rules of…

Machine Learning · Computer Science 2024-03-08 Bo Qiang , Yiran Zhou , Yuheng Ding , Ningfeng Liu , Song Song , Liangren Zhang , Bo Huang , Zhenming Liu

Fine-tuning for large language models (LLMs) typically requires substantial amounts of high-quality supervised data, which is both costly and labor-intensive to acquire. While synthetic data generation has emerged as a promising solution,…

Computation and Language · Computer Science 2025-05-28 Zihong Chen , Wanli Jiang , Jinzhe Li , Zhonghang Yuan , Huanjun Kong , Wanli Ouyang , Nanqing Dong

Large-scale electrification is vital to addressing the climate crisis, but several scientific and technological challenges remain to fully electrify both the chemical industry and transportation. In both of these areas, new electrochemical…

Multimodal large language models (MLLMs) have made impressive progress in many applications in recent years. However, chemical MLLMs that can handle cross-modal understanding and generation remain underexplored. To fill this gap, we propose…

Machine Learning · Computer Science 2025-08-05 Qian Tan , Dongzhan Zhou , Peng Xia , Wanhao Liu , Wanli Ouyang , Lei Bai , Yuqiang Li , Tianfan Fu

One of the primary challenges in quantum chemistry is the accurate modeling of strong electron correlation. While multireference methods effectively capture such correlation, their steep scaling with system size prohibits their application…

Chemical representation learning has gained increasing interest due to the limited availability of supervised data in fields such as drug and materials design. This interest particularly extends to chemical language representation learning,…

Chemical Physics · Physics 2024-08-06 Jun-Hyung Park , Yeachan Kim , Mingyu Lee , Hyuntae Park , SangKeun Lee

Experimental validation of chemical processes is slow and costly, limiting exploration in materials discovery. Machine learning can prioritize promising candidates, but existing data in patents and literature is heterogeneous and difficult…

Chemical Physics · Physics 2025-12-09 Mikhail Tsitsvero , Atsuyuki Nakao , Hisaki Ikebata

Generalizable person re-identification (Re-ID) is a very hot research topic in machine learning and computer vision, which plays a significant role in realistic scenarios due to its various applications in public security and video…

Computer Vision and Pattern Recognition · Computer Science 2023-04-20 Suncheng Xiang , Jingsheng Gao , Mengyuan Guan , Jiacheng Ruan , Chengfeng Zhou , Ting Liu , Dahong Qian , Yuzhuo Fu

Computational techniques are required for narrowing down the vast space of possibilities to plausible prebiotic scenarios, since precise information on the molecular composition, the dominant reaction chemistry, and the conditions for that…

Molecular Networks · Quantitative Biology 2018-02-07 Jakob L. Andersen , Christoph Flamm , Daniel Merkle , Peter F. Stadler

Recognizing entities in texts is a central need in many information-seeking scenarios, and indeed, Named Entity Recognition (NER) is arguably one of the most successful examples of a widely adopted NLP task and corresponding NLP technology.…

Computation and Language · Computer Science 2023-10-24 Uri Katz , Matan Vetzler , Amir DN Cohen , Yoav Goldberg

In this paper, we propose a new framework for fine-grained emotion prediction in the text through emotion definition modeling. Our approach involves a multi-task learning framework that models definitions of emotions as an auxiliary task…

Computation and Language · Computer Science 2021-07-27 Gargi Singh , Dhanajit Brahma , Piyush Rai , Ashutosh Modi

Multi-modal named entity recognition (MNER) aims at identifying entity spans and recognizing their categories in social media posts with the aid of images. However, in dominant MNER approaches, the interaction of different modalities is…

Computer Vision and Pattern Recognition · Computer Science 2023-03-10 Junyu Lu , Dixiang Zhang , Pingjian Zhang

Usually considered as a classification problem, entity resolution (ER) can be very challenging on real data due to the prevalence of dirty values. The state-of-the-art solutions for ER were built on a variety of learning models (most…

Databases · Computer Science 2019-06-17 Boyi Hou , Qun Chen , Yanyan Wang , Youcef Nafa , Zhanhuai Li

How to produce expressive molecular representations is a fundamental challenge in AI-driven drug discovery. Graph neural network (GNN) has emerged as a powerful technique for modeling molecular data. However, previous supervised approaches…

Machine Learning · Computer Science 2020-12-22 Pengyong Li , Jun Wang , Yixuan Qiao , Hao Chen , Yihuan Yu , Xiaojun Yao , Peng Gao , Guotong Xie , Sen Song

The recent advances in neural language models have also been successfully applied to the field of chemistry, offering generative solutions for classical problems in molecular design and synthesis planning. These new methods have the…

Machine Learning · Computer Science 2023-05-19 Dimitrios Christofidellis , Giorgio Giannone , Jannis Born , Ole Winther , Teodoro Laino , Matteo Manica

Although biomedical entity linking (BioEL) has made significant progress with pre-trained language models, challenges still exist for fine-grained and long-tailed entities. To address these challenges, we present BioELQA, a novel model that…

Computation and Language · Computer Science 2024-05-20 Zhenxi Lin , Ziheng Zhang , Xian Wu , Yefeng Zheng

Modeling the relationship between chemical structure and molecular activity is a key goal in drug development. Many benchmark tasks have been proposed for molecular property prediction, but these tasks are generally aimed at specific,…

Quantitative Methods · Quantitative Biology 2020-10-05 Samuel G. Finlayson , Matthew B. A. McDermott , Alex V. Pickering , Scott L. Lipnick , Isaac S. Kohane